On a Monday morning in early September, Hildegard Stoecker was on her front patio in southwest Tucson, where she likes to spend the sunrise. In a few hours, the sun would beat hard on the Arizona desert and temperatures would hit 100 degrees. But at 6 a.m., it was cool. A soft glow illuminated the peaked foothills of Tucson Mountain Park behind her home; in her front yard, cacti and Caesalpinia bushes were bathed in pink light and a hummingbird hovered by the window.

Stoecker was not feeling serene. On Friday she had received a message about a man on Arizona’s death row, whose name was all too familiar. Barry Lee Jones was convicted in 1995 for the rape and murder of a young girl. It was the kind of unfathomable crime that Stoecker felt should send someone to hang “from the highest tree,” she recalled. The trial judge agreed and sentenced Jones to die.

But 22 years later, Stoecker was disturbed to hear that Jones was still on death row. Not because she thought he should have been executed by now. In fact, it was the opposite: She had mistakenly assumed he’d probably been removed from death row — maybe even exonerated. “What you’re saying bothers me quite a bit,” she said. The sentiment was surprising coming from Stoecker. She was one of the jurors who convicted Jones.

Some 10 years ago, she explained, an investigator with the Arizona Federal Public Defender’s Office had visited her at home. He was interviewing trial jurors as part of the appellate process in Jones’s case. Her memory of the meeting is vague. But it made a strong impression, bringing up old doubts about the evidence presented at trial. She had always felt that Jones’s lawyers did a poor job representing him. The meeting made her think there had been other flaws in his case — and the state would be forced to address them.

Stoecker is in her 70s, with cropped gray hair. She wore jeans and a T-shirt with a bald eagle on it and was barefoot, seated in her motorized wheelchair. Decades ago, she was diagnosed with an incurable lung condition she contracted while working at a ceramics plant. At the time of Jones’s trial, she had just begun her treatment and was increasingly unable to work. She got involved in animal welfare. That morning, her rescue cockatoo, Max, squawked insistently from inside the house. Stoecker explained that Max had been traumatized after seeing “a bird friend” killed by dogs and had plucked out his own feathers. She was fostering him until he found a new home.

If Stoecker’s natural compassion made her an unlikely death penalty supporter, Jones’s sentence had not been for her to decide. In those years, judges, not juries, imposed the death penalty in Arizona. “Whether we as a jury would’ve sentenced him to death, I don’t know,” she said. But there was another reason capital punishment made Stoecker uneasy. When she was a teenager in San Francisco during the 1950s, California executed a man named Burton Abbott for raping and murdering a 14-year-old girl. Abbott swore he was innocent; like Jones, his conviction relied heavily on circumstantial evidence. On the day he died, the governor called the prison to grant a last-minute stay, only to find the execution was already underway.

“I don’t know that I was fully convinced he was guilty,” Stoecker said about Abbott. But she was only in high school — “What did I know?” She did not give the death penalty much thought after that. Not until the trial of Barry Jones.

“This is something that’s been with me for a long, long time,” Stoecker said. The possibility that she might have made the wrong decision distressed her.

“I realize a lot of people just put it out of their minds and go on with their lives,” she said. A friend had told her, “‘Look, you did the best you could at the time. You know, just kinda let it go.’ And I can’t let it go.”

Since the day of his arrest in 1994, Barry Lee Jones has insisted he did not rape or kill his girlfriend’s 4-year-old daughter, Rachel Yvonne Gray. Jailed on the same day the child’s lifeless body arrived at a Tucson hospital, Jones admitted she’d been injured on his watch, repeatedly saying she had fallen from his parked yellow work van the day before, hitting her head. Jones said Rachel told him a little boy had pushed her out. But even if it was true, that did not explain the bruises covering her body, or the abdominal injury that took her life.

Almost no physical evidence linked Jones to Rachel’s injuries — and there was nothing to show he was guilty of rape. But when children die under mysterious circumstances, early suspicion typically falls on the adults who were closest to them in their final hours. On that day, witnesses said, that person was Jones. He and Rachel’s mother, Angela Gray, were tried back to back in 1995; Gray was convicted of child abuse but acquitted of murder. Jones was sentenced to die.

After more than 20 years insisting upon his innocence, Jones won a rare evidentiary hearing from a U.S. district judge, set to begin October 30. Attorneys with the Arizona Federal Public Defender’s Office plan to argue that Jones’s trial was fundamentally unfair, marred by ineffective assistance of counsel in violation of his Sixth Amendment rights. Moreover, they say, bad lawyering at the post-conviction level left the trial attorneys’ failures unaddressed, resulting in a horrible miscarriage of justice. If his lawyers succeed, Jones could win a new trial — or even be released from prison.

Poor defense representation and a lack of physical evidence are both hallmarks of wrongful convictions. The files in Jones’s case reveal many more. They show a rush to judgment, tunnel vision by the Pima County Sheriff’s Department, and a shifting theory of the crime by the state. Prosecutors relied on the most dubious kinds of evidence, from flawed forensics to the eyewitness accounts of young children. Vital pieces of evidence were lost, concealed, or never collected to begin with. More recently, DNA testing on one key item has failed to implicate Jones.

In a state where eight people have been exonerated from death row, Arizona prosecutors have fought against reopening Jones’s case, even as the basis for his conviction has fallen apart. As his defense attorneys argue, “Jones was convicted based on a very specific timeline, which was grounded on a single factual premise: that Rachel was fatally injured and sexually assaulted while she was alone with Jones on portions of Sunday, May 1, 1994.” The total time frame was no longer than four hours, during which Jones was seen taking the child on short trips in his van. But several medical experts hired by defense attorneys have concluded that Rachel’s fatal injury could not possibly have occurred within the narrow window presented by the state.

More significant still, in a recent letter to Jones’s lawyers, the Arizona Attorney General’s Office conceded that the current Pima County medical examiner “did not dispute the conclusions of your experts.” And the forensic pathologist who took the stand against Jones in 1995 has acknowledged that his testimony was flawed. Jones’s attorneys are certain that if the case were tried again, “no juror acting reasonably would ever find Jones guilty beyond a reasonable doubt.”

For his part, Jones admits he was no upstanding citizen before he went to prison. But he did not kill Rachel Gray. “I was guilty of a lifestyle,” Jones told me. “I was a thief. I was a dope fiend. … I wasn’t looking out for nobody but myself. And I hold myself responsible, because she died under my roof, on my watch. … I blame myself every day for that.”

It was 6:16 a.m. on May 2, 1994, when 30-year-old Angela Gray arrived in her nightgown at Kino Community Hospital in south Tucson, carrying her youngest child, Rachel. The frail 4-year-old wore pink pajamas with feet. She was pale and had no pulse. Emergency room doctor Steven Seifert was nearing the end of his overnight shift when he entered the examination room. He quickly realized there was nothing to be done. The child was cool to the touch, he would later testify, and rigor mortis had already begun to set in. “She was essentially dead on arrival.”

She was also covered in injuries. There were abrasions and bruises all over her body, Seifert testified, along with other disturbing signs of trauma. Seifert told Gray that her daughter was deceased. Then, as he was obligated to do under the law, he called the police.

Tucson police officer Richard Law was the first to arrive at the hospital. “It was my opinion that, just from looking at her, she had been severely beaten,” he later said in an interview with defense attorneys. He approached Gray, but she was not all there, seemingly fixated on smoking a cigarette. She was thin, with dirty blond hair, and covered with a blanket. Gray told Law that her boyfriend, Barry Jones, had dropped her and Rachel off at the hospital. He supposedly was going to check on the children they had left at home, but he had not come back yet. “I just thought it was very strange,” Law said.

At 7:44 a.m., a second Tucson police officer, Michael Thomson, took a formal statement from Gray in the doctor’s lounge. Gray said that she and her three children lived with Jones and his daughter in the Desert Vista Trailer Park on East Benson Highway, just 4 miles south. The two had met a few months earlier. Jones was a mechanic, Gray said. She did not know his birthday. “Um, um, he’s like 35 years old.”

Gray had no explanation for what had happened to her daughter. She had slept through the previous day, she said, and did not wake up until early evening. “I can tell you what I was told happened,” Gray said. When she woke up, Jones told her that he had put Rachel down for a nap; she had been playing with some kids in his van when she fell out of the vehicle, hitting her head. Jones reassured her that Rachel was OK. But later, she saw Jones returning in his van with Rachel. He said her head had started bleeding, and he had taken her to the fire station just down the street. Paramedics had taken out her braids and rinsed her head, reassuring Jones that head wounds bleed a lot.

Rachel seemed OK, but later she began vomiting, Gray said. Rachel said she was thirsty, but “every time I’d give her a drink, she’d, like, drink it real fast and throw up.” Later that night, she noticed bruises on her chest. Gray said she asked Rachel if someone had hurt her, “and she said the little boys that pushed her out of the van.”

Rachel went to sleep in the bed Gray shared with Jones. The next morning, Gray found her in her own room, buried under the covers. When she removed the sheets, Rachel would not wake up. Gray yelled for Jones. “I remember screaming that we didn’t have time,” she said, “and to just get me to the hospital, and he could come back and get the kids.”

But Jones had not come back to the hospital. “I mean, why wouldn’t he come back?”

Thomson asked Gray about her relationship with Jones. Had he ever hit her? Gray said no. Thomson asked how they disciplined the kids and Gray chuckled. “If the girls would get in trouble for something, it’s ‘You have to stay in your room over this weekend, no TV’ and stuff, and that usually lasts for two or three hours, and he lets them out of the room.” With her son, Jones sometimes took away video games, she said. But Jones was gone a lot and wasn’t usually in charge of the children. “I’ve never seen him lay a hand on any of the kids.”

It was shortly after 8 a.m. when Pima County Sheriff’s Detective Sonia Pesqueira — known then as Sonia Rankin — arrived at Kino Hospital. Thirty-one years old and five months pregnant, Pesqueira had started her career as a campus police officer at Pima Community College, coordinating the rape prevention program. She joined the sheriff’s department in 1984. Her personnel file would show an early passion for investigating sex crimes. One retired detective who worked on the Jones case told me Pesqueira was “top notch,” a zealous defender of children.

Thomson told Pesqueira what he’d learned. From that point on, the investigation belonged to Pesqueira and the Pima County Sheriff’s Department.

An autopsy was scheduled for the next day, but Pesqueira didn’t wait to speak to any doctors. “I do my own examination,” she would later tell a grand jury. “Medical personnel are not in the room.” Pesqueira removed Rachel from the body bag. “I observed numerous and varied contusions on the victim’s torso area to include the abdominal and upper chest area,” she wrote in a report. “There were contusions to the face area, eyes and forehead. The contusions to the area around both eyes appeared to be in varying stages.” There was dried blood on Rachel’s head. Then Pesqueira checked between her legs. There was “extensive injury” inside her vagina, she found. There was also blood.

Pesqueira put Rachel’s pajamas and underwear in a paper bag. Then she went to find Angela Gray.

East Benson Highway cuts a southeast line across Tucson. In its heyday, it was the city’s main drag, lined with “snowbird motels,” cheap roadside lodging with iconic neon signs that attracted Northerners in winter. But along the 5-mile stretch that was home to the Desert Vista Trailer Park, Interstate 10 was built parallel to the road, cutting it off from traffic and isolating its businesses. The area took a turn for the worse. “To most Tucsonans now,” the Arizona Daily Star reported in 2006, “Benson Highway is just a seedy stretch of road on the way to the airport, a place to punch the door-lock button if they hit a red light.”

The Desert Vista was located toward the end of the highway, where rolling desert attracted people who lived off the grid, forming makeshift transient camps. The area could be dangerous. The year after Rachel Gray died, a 20-year-old woman was found raped and strangled at a nearby camp.

Pima County Sheriff’s Detective George Ruelas arrived at the trailer park on the morning of May 2. At around 8:40 a.m., according to his report, Ruelas went to the Rural Metro Fire Station, where Jones told Gray a paramedic had examined Rachel the day before. The station log for Sunday, May 1 “showed no record of contact with Rachel Gray,” Ruelas wrote. The fire captain told Ruelas that as far as he knew, no one there had encountered the little girl.

Jones had lied to his girlfriend.

By the time Ruelas sat down with Jones’s 11-year-old daughter, Brandie, later that morning, rumors were flying at the Desert Vista. Police had found her father at a transient camp nearby. Their home had also been searched. The single-wide trailer was surrounded by junk: old tires, slabs of wood, and large appliances scattered in front of the chain-link fence. Inside it was dirty and cluttered, with pockmarked wood paneling covering the walls.

“I have a question to ask,” Brandie said. “Um, what kid did my dad hurt?” Ruelas said he did not know if Jones had hurt any kid. “’Cause that’s what everyone’s tellin’ me,” Brandie said, but “my dad didn’t hurt any kids.”

Brandie remembered hearing Rachel say she had fallen from the van. The vehicle’s large interior was filled with tools, divided into compartments and covered with a piece of plywood. Brandie explained that there weren’t any kids Rachel’s age at the trailer park, so she liked to hang out while Jones did mechanical work. “She’ll say, Oh, you got that crooked, and he’ll have to go back over it, and they, like, have a lot of fun together,” Brandie said.

Brandie told Ruelas that Jones did not hit her, Gray, or any of the kids. She also shared another thing: On Sunday, Rachel said that a boy had hit her in the stomach with a metal bar the day before. A misunderstanding ensued — Gray thought Rachel meant that Jones had hit her, and the two got into an argument. But Rachel meant a little boy, Brandie said. She did not know who Rachel was talking about. But she did see a bruise on Rachel’s stomach.

Meanwhile, another detective was talking to Becky, Rachel’s 10-year-old sister, at the sheriff’s department. Becky said that she had come back from a friend’s house Sunday evening and saw Rachel on the couch, with a washcloth on her head. Her mother asked Rachel how she got injured, and “she kept saying, A boy pushed me out of the van and hit me with a metal bar in the stomach,” Becky said.

The detective asked Becky if she thought Jones would ever hurt Rachel. “No,” she said. Had he ever hit her or “touched any of your private parts or anything?” Again Becky said no. The detective asked if both Gray and Jones had stayed home on Sunday. Becky said her mom had slept all day, but Jones had gone to a friend’s house and to the store. Did any of the kids go with him? “Rachel,” Becky said.

“Just her and him?” the detective asked. Yes, Becky said.

Back at the hospital, Pesqueira and Gray sat outside in Pesqueira’s police car. There were no rooms available inside, Pesqueira would later explain. Relatives voiced concern that Gray had not been read her rights, but Pesqueira reassured her. “You’re not in custody, and I’m talking to you as a mom, OK?” she said. “I just wanna know what happened to your baby.”

Gray repeatedly told Pesqueira that she could not picture Jones hurting Rachel. The night before, Rachel had asked if she could sleep in the middle of the bed “’cause she wanted to sleep by Barry too.” It sounded stupid now, Gray said, but Jones made her feel safe. When her ex used to get drunk and beat her up, other men would never intervene. But Jones protected her. “And nobody’s ever done that.”

Gray recalled a couple of days when Rachel seemed to be afraid of Jones. And Rachel had recently come home with a black eye, which Becky blamed on Jones, saying he’d hit Rachel with a rake. But Rachel said it wasn’t true. Gray explained that Becky, who was going through a “lying phase,” sometimes got jealous and picked on her little sister. Gray discovered she had been using Jones to scare Rachel, threatening that if Rachel told on Becky about anything, Jones would hurt her.

Gray said she did not know how Rachel had gotten so many bruises on her body. “Angela, did you cause any of these injuries?” Pesqueira asked. Gray said no. Then Pesqueira told her that Ruelas had found no record of Jones taking Rachel to the fire station. “Oh no,” Gray said.

The interrogation of Barry Jones is hard to watch.

At 10:11 a.m., Pima County Sheriff’s Detective Michael O’Connor leads him into a small interview room. Jones is short, just 5 foot 7, and disheveled. He is wearing a red T-shirt and jeans that hang loosely from his hips. His long, scraggly hair is thinning on the top. The detective who brought him from the transient camp had found him passed out, later describing him as distraught and “extremely wobbly.”

“I don’t know if anyone’s told you yet, do you know why you’re down here?” O’Connor begins. “No,” Jones answers. “I took the little girl to the hospital and her mom this morning,” he says. “I need to see my old lady to the baby.”

Then O’Connor tells him that Rachel is dead.

What! No.

I’m not lying, Barry.

No.

I’m sorry.

She gonna be all right. No. (starts crying) No. No. No. No. No. No. No. She’s all right. She’s all right. No. No. No. No. God.

Jones says he wants to go see Rachel. O’Connor says that Rachel has wounds that are “consistent with, um, uh, an abused child.” Jones screams.

Now, Barry …

No, no, no, no, no.

Barry, please listen to me. I don’t know what happened, OK. Or how these things may have happened to this child, OK. I do know …

She’s only 4.

Jones sobs and buries his head in his hands. O’Connor asks him to compose himself and then reads him his Miranda rights. While O’Connor briefly leaves to get a box of tissues, Jones remains slumped over the table, moaning.

Pima County sheriff’s officers would later describe suspicions about Jones’s hysterics. “I felt he was acting,” Sgt. Michael Downing said at a pretrial hearing. “He started to slam his head against the table. I thought it was a joke.”

When he spoke, Jones answered questions in sobbing, guttural bursts. At times he seemed dazed, offering rambling memories of Rachel: how he sang her a lullaby but did not know all the words; how he built a bed for her — and she “was all proud, proud of that little Rachel bed. Boy, made me feel so good, you know. She liked her little Rachel bed.”

Over the first two hours in the interrogation room, O’Connor was able to elicit some basic information from Jones. Much of it matched Gray’s general account. Jones said he had napped on and off on Sunday and at one point saw Rachel fall out of the van, where she had been playing with two little boys. “And she said one of ’em pushed her out,” he said. She didn’t cry, but she had a knot on her head. He gave her half a Tylenol or an aspirin and she went back out to play. Later Rachel went with him to get some frozen burritos for dinner at the Choice Market nearby. “She carried the milk for me,” he said.

Sometime after that, Jones said, neighbors noticed that Rachel looked sick. After laying her down for a short nap, he noticed there was blood on her pillow, which scared him. He loaded her into his van and headed toward the Rural Metro Fire Station. But there was a police officer there, Jones said — and his driver’s license was suspended. He drove on to the Quik Mart down the street, where he saw an EMT. The man shined a light in Rachel’s eyes. “He said something about her, her eyes being reactive equal, reacting equal, something,” Jones said. The EMT told him to keep ice on Rachel’s head, and “that’s what I done.”

Jones said he had noticed the bruises on Rachel’s stomach when Gray put her in pajamas the night before. O’Connor asked about Rachel’s other bruises. “What other bruises?” Jones asked. There were bruises that appeared to have been healing for weeks, O’Connor said. “I don’t know,” Jones said. “Her mama told me she bruised real easy.” Gray had not wanted to take Rachel to the hospital, Jones said. “She just said last night, I’d take her to the emergency room, but they’d take her away from me.”

O’Connor asked Jones if he had ever spanked Rachel. “Never,” he said. Jones admitted yelling at the kids — he sometimes called Rachel a “whiny butt” and sent her to her room — but he didn’t believe in physical punishment. “It don’t serve no purpose.”

Nearly three hours into the interrogation, Pesqueira arrived. Things soon escalated. She told him that Becky had accused him of hitting Rachel. She also implied that Brandie had made accusations, too. “Did you know that your own daughter has said certain things about what you did to her?” Pesqueira asked.

I did to who?

Did to Rachel.

No. I never done nothing to Rachel.

Did you know that you could be facing first-degree murder charges? First-degree murder, Barry, that’s what we’re talking about.

Me?

You. You. Because everything points to you, Barry.

Jones swore he did not hurt Rachel. But “I let her die,” he cried over and over again. Detectives insisted he was lying. Pesqueira called him a “piece of shit.” Downing suggested Jones had lost his temper. “She pissed you off, didn’t she?” he asked. “Rachel was a good girl,” Jones cried.

At one point, Downing said Rachel was looking down from heaven unable to rest, asking Jesus why Jones would not admit what he did. “She would never lie to Jesus,” Jones said.

After almost five hours, the interrogation ended. Jones was put in handcuffs and booked for first-degree murder and child abuse.

In a front-page story on May 3, 1994, the Arizona Daily Star reported on the arrest of Barry Jones. It mentioned Rachel’s alleged fall from the van, but also quoted an anonymous neighbor who described how Rachel had walked into her camper trying to vomit. “Her face was a greenish color, then it turned white,” she said. Jones “looked real concerned for her.”

An autopsy was conducted that same day. Dr. John D. Howard, a pathologist with the Pima County Medical Examiner’s Office, conducted the procedure while Pesqueira watched.

There were signs Rachel was not well cared for. She was underweight, just 28 pounds. Her baby teeth showed decay. The external injuries included “blunt genitalia trauma” and a deep cut on her scalp. But the head injury was not what killed Rachel. Instead, Howard found “an irregular laceration of the descending portion of the duodenum” — part of Rachel’s small intestine. It was a relatively rare injury, commonly associated with car accidents, and likely caused by a sharp blow to her stomach. “Death was caused by small bowel laceration due to blunt abdominal trauma,” Howard wrote in his autopsy report.

Meanwhile, Pima County detectives kept interviewing children. A woman named Norma Lopez had contacted the sheriff’s department, saying that on May 1, around 4 p.m., her 8-year-old twins — a brother and sister — came home from the Choice Market near the Desert Vista. They said they had seen a man with “flying hair” hitting a little girl while driving a van. The girl was crying — “They could hear her and they could see it,” Lopez told the detective. When she saw the news about Jones’s arrest on TV, “I knew right away the kids saw the same guy.”

Interviewing young children can be fraught with risk. An unqualified questioner can extract unreliable or imagined recollections. At the time of Rachel’s death, coercive or suggestive interviewing of children had led to a rash of lurid, elaborate, and false accusations about ritual sexual abuse at daycare centers across the country. The resulting wrongful convictions are still being overturned.

Despite the existing research in 1994 recommending best practices for interviewing children, the Pima County Sheriff’s Department had no such protocols in place. The twins were interviewed in each other’s company, with their mother present. Both said they saw a man hitting and elbowing a little girl while driving a van. When Laura, the sister, said she had not watched the 5 o’clock news to confirm that Jones was the man she saw, Lopez reminded her that she had. The detective asked Laura if she really remembered watching the news. “A little,” she said. When Ray, the brother, couldn’t estimate the age of the man in the van, Lopez brought up her own brother, who was in his 30s. “OK, was he about like your uncle?” the detective asked. “Uh huh,” the boy said.

The Lopez twins would become key witnesses for the state.

Becky, too, would become an important witness against Jones. After her mother was arrested on May 3, she and her 14-year-old brother, Jonathan, were taken in by their aunt Donna Foster. The next day, Foster contacted detectives, saying Becky had something new to share. In a videotaped interview, Becky recalled overhearing Rachel telling her mother that “Barry hit her with a metal shoe bar in the head.” Becky didn’t see the shoe bar, or really know what a shoe bar was. But she heard her mom and Jones arguing about it. “Becky states she was present when Rachel told their mother that Barry had caused the injuries to her,” the detective wrote in a report.

While detectives collected statements against Jones, signs began to surface that Gray abused her kids. When Foster picked up Becky and Jonathan from school after their mother’s arrest, she found them unkempt and wearing clothes they had outgrown, according to an affidavit she later provided to Jones’s federal defense attorneys. The kids ate voraciously, awed by the amount of food she had at her home. Before long, Foster called Child Protective Services with concerns that Becky had suffered abuse and “possible inappropriate sexual touching,” according to a subsequent medical report. Becky told doctors that her mother hit her in “all sorts of places,” including her stomach and face.

Angela Gray’s own upbringing was marked by trauma. According to Foster’s affidavit, Gray’s 18-year-old mother killed herself when Gray was young; her father moved her from Massachusetts to Arizona, only to give her up for adoption. By the time she was a teenager, Gray was doing drugs and living on the streets, Foster said. Gray’s sister had told police at the hospital that Gray seemed depressed and ill-equipped to raise her kids.

The consequences were particularly dire when it came to Jonathan, who was born deaf. Gray did not provide the care he needed to learn to communicate; when he was little, Foster remembered Jonathan “screaming at us because he could not speak.” It was not until he was 12 years old that he was enrolled at the Arizona School for the Deaf and Blind, where administrators found “he could only read at a second-grade level,” according to Foster.

During Jonathan’s own interview with Detective Ruelas on the day Rachel died, he seemed confused, asking if his sister was going to stay in the hospital. He had gone to school that morning. No one had told him what was going on. Through an interpreter, Jonathan referred to Jones as his “friend,” saying at one point he had pulled Rachel’s hair, but “not hard.” Jonathan said Jones never spanked Rachel, just sent her to her room.

Jonathan would never take the stand. Nor was the evidence of Gray’s abuse admitted at Jones’s trial. Jurors never heard about it.

Upon arriving at the Pima County Jail, Jones wished aloud he could trade places with Rachel. He was put on suicide watch. Shortly afterward, Jones received notice of his indictment and the state’s plan to seek the death penalty. He also received a letter from Gray.

“Angela baby, if I could tell you what happened to Rachel I would in a minute and we would not be where we are,” Jones wrote back. He told her what happened after he left her at the hospital. First, he had picked up the kids and taken them to his twin brother Larry’s house. Then he asked a friend to go with him to see a man named Ron, who lived in a school bus at a nearby transient camp. He planned to return to the hospital, but Ron told him he was having a “breakdown” and gave him a pill to calm him down. Jones passed out. The next thing he knew, he was being arrested.

“Babe I lied about the fire station,” Jones wrote. He explained that he’d seen a sheriff’s officer and wanted to avoid him since he had no license or plates. He apologized, “but Rachel’s head was bleeding and Fire Station and Paramedic sound much more comforting to a mother than Quik Mart and EMT.” The thought that someone hurt Rachel made him feel sick, he wrote. “It makes me think I should have hung around the house more often and not been gone so much.”

Meanwhile, a private investigator named George Barnett began working on the case, hired by Jones’s court-appointed attorneys. An Air Force veteran who did three tours in Vietnam, Barnett had worked as a Tucson police officer until opening his own practice. In mid-May, he visited the Desert Vista Trailer Park.

Barnett recorded his findings in a 16-page report. He heard the same thing again and again: Jones was not known for physical violence and neighbors trusted him with kids. A manager of the trailer park said he was quiet and polite, and seemed to have a good relationship with his daughter, Brandie. One woman said Jones would often help his neighbors with repairs, asking only compensation for the parts. If he lost his temper, he just walked away — and “his payback would be in the form of never assisting or helping that person who made him angry,” Barnett wrote.

But Angela Gray was another story. Several people told Barnett she yelled at her children when Jones was not around. One neighbor said that she had stopped letting her daughters play at Jones’s home after Gray moved in. She believed Jones wasn’t really in love with Gray but tolerated her because he didn’t want to kick her out with her children. “I can’t believe that Barry had anything to do with harming that child,” the neighbor told Barnett.

Not everyone had described Jones in glowing terms. The day after his arrest, his ex-wife, Carol, told detectives that during their marriage, he had been “angry most of the time.” He was out of work and using drugs, lashing out and cursing at the kids. He had not generally been violent, she said, but in that period “he took a belt to ’em” a few times. When she decided to leave him, he threatened to kill himself in front of the kids and was forced into psychiatric treatment. But a former manager at the trailer park told Barnett that Jones had quit drinking and “was much less agitated” than he had been during his marriage to Carol.

Leann Jones, who was married to Larry, said Jones was far from perfect, but he would never hurt a child. “I mean, there’s things Barry probably has done over the years that he should be in jail for, but not for that,” she told me. The brothers were born in South Carolina and grew up in a volatile household, moving constantly. Their mother, herself a victim of abuse, drank heavily, beat the kids, and once stabbed her husband, according to interviews with family members conducted by Jones’s federal defense team. Jones began stealing and was sent to Vision Quest, a program for delinquent youth. By the time he shacked up with Gray at the Desert Vista, they were both hooked on crystal meth.

Barnett also learned that Jones had been having an affair with a woman named Rose, the friend who went with him to the transient camp the day Rachel died. Rose was his ex-girlfriend; her own daughter, Elishia, remained close to Jones. On the phone, Rose told Barnett that Jones had shown up distraught that morning, saying that Rachel was in a coma and convinced it was because of the head injury.

Barnett’s report was filled with leads to pursue. The co-owner of the Desert Vista told him he had heard that a “2-year-old boy who was slightly large for his age had struck Rachel in the stomach with either a stick or an iron bar.” After the arrests of Jones and Gray, the mother of the boy “packed her things and moved within two hours without notifying the office,” Barnett wrote. Neighbors said she was “scared to death” that her son might be responsible for Rachel’s injuries.

But just a week into his work, Barnett was told by Jones’s attorneys that continuing to pay him was “financially infeasible.” Barnett would stop his investigation until further notice. He never picked it up again.

George Barnett died in 2014. But in a sworn affidavit signed in 2002, he said he was certain he could have proven Jones’s innocence had he been able to keep investigating. He had not even realized that Jones was represented by Sean Bruner, a Tucson defense lawyer who was the lead attorney on the case; Barnett had only ever met with his co-chair, Leslie Bowman. He was never called to testify at trial.

Bowman, who is now a U.S. magistrate judge, acknowledged in a 2002 affidavit that she failed to seek additional funds to pay Barnett. She had only practiced law for about a year, yet Bruner delegated major responsibilities in the capital case to her, such as interviewing all witnesses. She never even spoke to Gray.

Jones expressed confidence in his lawyers in his early letters from jail, which he wrote mainly to Rose and Elishia. He rarely mentioned Bruner but was upbeat about Bowman, who he called Miss Leslie. She was “pretty as a speckled puppy,” he wrote, and “sharp as a tack.” He observed that “Mr. Sean is piling on the work on her.”

But as time went on, Jones described lapses in communication with Bowman and concerns that the state was manipulating the evidence against him. “The really rough part is that I believe they already know of my innocence but do not want to look stupid so they try to fabricate a story against me,” he wrote.

Jones had been in jail for six months when he got word that his twin brother, Larry, had died. Jones sought permission to go to his funeral but was denied. He spiraled downward after that. As his trial approached in the spring of 1995, Jones sent a letter to Bowman. “Dear Miss Leslie,” he wrote, “wanted to write and see what is happening. It is getting close to trial time and I am becoming very scared.”

Amonth before the start of the trial, Brandie was deposed by attorneys for Jones, Gray, and the state. Brandie repeated that Rachel had been hit in the stomach by a little boy using an iron bar, but now claimed to have seen it herself. A defense attorney for Gray brought up a boy named “Ryan,” who Brandie had briefly mentioned during her interview with Detective Ruelas, while listing the kids who lived in the trailer park. Brandie said Rachel used to talk about a Ryan who was always being mean to her.

Brandie also said that Rachel’s older brother, Jonathan, used to sleep in the same room as the girls. When he entered the room, Rachel would say, “Can I sleep with you, Brandie?” A defense attorney asked if Jonathan ever tried to touch Brandie in a bad place. She said he did once, and she told Gray. After that, her dad built a separate room for Jonathan on the other end of the trailer.

In her 2002 affidavit, Bowman said she never attempted to contact Jonathan, “although he was both a potential suspect and a potential witness.” Years later, as part of Jones’s federal habeas appeal, attorneys collected sworn affidavits from several people at the Desert Vista who said that girls were afraid of Jonathan. Jones’s niece Tera said that both she and Brandie had experimented sexually with him, but she thought it was possible he’d molested his little sister since she believed he could not control himself.

In one affidavit, Elisha said Jonathan chased girls, touching their breasts or grabbing them between their legs. “He was very rough,” she said, “and he went after the little girls as well as those of us who were a little older.” A neighbor said that she had found her five-year-old daughter under a blanket with him. Elisha’s sister called Jonathan “the nastiest little pervert.” But she also said there were “lots of crazy, perverted people there.”

Indeed, the same affidavits are rife with allegations of sexual abuse by adults at the Desert Vista. One man named Bob was a known “molester” who was “always saying ‘hi’” to Rachel, Tera said. According to a 1993 report from the Pima County Sheriff’s Department, Brandie also accused a neighbor named Robert of fondling her at the trailer park. And Jones’s twin brother, Larry, had a bad reputation among the kids, mainly for being mean and violent — but also at one point for taking “inappropriate showers” with his stepdaughter Chelsea, Leann’s daughter.

Chelsea is in her 30s now. She remembers the Desert Vista as a place where the kids ran around barefoot and the adults all did crank. She has deep anger at Larry for being abusive. Yet she recently began writing to Jones in prison. “The one thing that’s always stood out to me is that he always tried to protect my mom,” Chelsea told me. When Jones saw Larry harm her mother or the kids, Chelsea said, the brothers would end up in a fistfight.

Today, Chelsea wonders if Larry should not have been an alternate suspect, along with so many others at the Desert Vista. As Tera said in her affidavit, Rachel was not shy. “She would go with almost anyone. Since Angela was always sleeping off her highs, Rachel was unsupervised a lot.”

The trial of Barry Jones began in April 1995. Angela Gray had recently been acquitted of murder, with her attorney pinning Rachel’s death on Jones. She was convicted of child abuse and given eight years in prison.

Superior Court Judge James Carruth presided over both trials. Sean Bruner, Jones’s defense lawyer, told me Carruth had a reputation for being a bit lazy and going along with the state. “He liked to move things along real quickly,” he said, an observation supported by the trial transcripts. While Bruner said this hardly set Carruth apart from other judges, another veteran Tucson defense attorney, Richard Lougee, was scathing. He told me Carruth had once spent a major trial doing his taxes and reading Golf magazine. “His attitude toward justice was aggressive indifference.”

Representing the state was Kathy Mayer, head of the Pima County Attorney’s Special Victims Unit. A longtime prosecutor and advocate for gay rights, Mayer was tough. She had navigated homophobic attacks from city council members in the ’80s and proved formidable in court. She also had a reputation for integrity. “I’ve never thought of her as one of the sleazy attorneys in that office,” Bruner said, calling her “terrific.” Lougee, who tried sex crimes cases against Mayer for decades, compared her favorably to other prosecutors of the era, while also describing her as an ideologue and “true believer.” “She tried people rather than facts,” he said. “She was very good at what she did. I had no reason to think she was dishonest in any way.” But “once she became committed to a case, she got tunnel vision.”

In her opening statement, Mayer described what caused Rachel’s death. She had died from a condition called peritonitis, which is caused by a rupture of the small intestine. As a result, fluids that are supposed to pass through the intestines “leak out into the rest of our body, and it slowly poisons us,” she told jurors. It was a painful death — and it was not an accident, Mayer said. “Who killed her? The state contends Barry Jones killed her.” They had eliminated “any other possible suspect.”

The trial lasted just over a week. The state sought to prove that on the afternoon of May 1, 1994, Jones had beaten and raped Rachel inside his van. To prove it, Mayer called witnesses who said that they saw Jones coming and going with Rachel. The time frame for each trip was shaky, based on loose estimates from kids and adults. “A lot of people in this case that aren’t good at telling time,” Mayer was forced to tell jurors by the end. But it all happened between 2 p.m. and 5:30 or 6 p.m.

Particularly important was Becky, Rachel’s sister, whose statements continued to evolve. At her mother’s trial just a few weeks earlier, where she had cried on the stand, Becky repeated what she had always said — that her sister had taken two trips with Jones and that she seemed OK when she came home. But testifying against Jones, Becky suddenly said there had been three trips. She also recalled seeing bruises on Rachel’s face and hands. She had never mentioned these before. Finally, she said Rachel acted scared of Jones, who sometimes hit her while they played. “Barry would want a hug and Rachel wouldn’t go there,” Becky testified.

The Lopez twins also took the stand. Both were asked to act out the part of the man with the messy hair hitting the little girl while driving the van outside the Choice Market. Ray Lopez said the girl was crying, but he could not see her face — and he did not recognize the van when shown a photo. His sister, Laura, said she saw the girl’s face “a little” and could see her eyes watering. But their mother, Norma, testified that her children were sure of what they had seen. “They came running in — they were out of breath and anxious to tell me the story,” she testified.

If anyone inside the Choice Market saw something suspicious that day, the state did not call them to testify. In fact, there is no hint in any of the police reports that anyone from the Pima County Sheriff’s Department ever visited the store. Yet the state did call an employee from the Quik Mart, where Jones had said an EMT had looked at Rachel. The employee said a man with a little girl had come in for some ice during her shift — but not at the time when EMTs from the fire station usually stopped by.

On April 12, 1995, Sonia Pesqueira took the stand. She had recently been promoted to sergeant. In Bruner’s opening statement, he said there was no physical evidence to show Jones had raped and killed Rachel. It was up to Pesqueira to prove the opposite.

No semen or pubic hairs had been found to show Rachel was raped. But a serologist had testified that there were trace amounts of blood (too little to effectively analyze) found on the shirt Jones was wearing the day of his arrest, along with small stains on his jeans. The latter matched Rachel’s blood type. Small amounts of blood had also been found on and around the passenger seat of the van, some of which also matched Rachel. With Pesqueira on the stand, Mayer would use the blood evidence to show that Jones had beaten Rachel during the third trip in the van, then raped her behind her seat, leaving an “impression stain” on the carpet.

Pesqueira readily admitted that she was not an expert in bloodstain interpretation. But she had once attended a weeklong workshop on the topic in Scottsdale, Arizona. Asked by Mayer to help the jury understand the “terms [of] art that you use to differentiate maybe one type of stain or spatter from another,” Pesqueira said that bloodstains could be matched to different velocities, for example. “Because I am not qualified as an expert to say what velocity they are, I could say I could appreciate what type of stains they were in relationship to where the victim could have been and the assailant could have been,” she said.

It was confusing. It was also well outside the bounds of Pesqueira’s expertise. At one point, Bruner objected. Carruth said her claims sounded “awfully speculative to me.” But he let her proceed. Pesqueira walked the jury through the photos to show how, when Jones struck Rachel in the passenger’s seat, blood from her head would “spatter out.”

Pesqueira also analyzed photos of Rachel’s bruises, sorting newer ones from older ones based on their color and appearance. Another photo showed that Rachel had “linear contusions on her lower abdomen below her rib cage.” These were “consistent with pattern injuries,” in which a tool or instrument leaves an impression on human skin, she said. Mayer asked if Pesqueira found an item that was consistent with the pattern in the photograph. “Yes, I did,” Pesqueira said. A pry bar was discovered under the van’s driver’s seat.

Jurors found the forensic evidence compelling. Hildegard Stoecker remembers the blood in the van and on Jones’s clothes as “the main thing” she found convincing. “But you can read that two different ways,” she said. “Now I look back at it and realize, well, that could’ve been just simply from him carrying her and her being in the van — it doesn’t necessarily mean that he killed her.”

Bruner did not call any expert witnesses to challenge Pesqueira’s testimony. Nor did anyone explain the unreliability of eyewitness accounts from children, or the pitfalls of assessing injuries based on observation alone. Finally, and most crucially, there was no expert witness who could counter the state’s theory about the timing of Rachel’s fatal injury.

Instead, Bruner called just one witness for the defense: 12-year-old Brandie Jones. Since her father’s arrest, Brandie had moved from one relative’s house to another and attended four different schools. From the jury box, Stoecker felt sorry for her. She remembered seeing Brandie in the restroom before she testified, going through a trash bag filled with clothing given to her by a defense attorney. “She’s going through these clothes trying to figure out what to wear,” Stoecker said.

Brandie repeated the claim about the boy and the metal bar. Mayer easily cross-examined her, pointing out inconsistencies in her statements. Stoecker and others felt Brandie was just trying to help her dad. A juror named Odessa Poles remembers being disgusted at Jones and Bruner for putting the child in that position.

On April 14, 1995, Jones was found guilty. Bruner was not surprised. “It was a tough case,” he told me. The evidence had been weak, but “Barry’s the boyfriend, he’s a drug addict, you know, he kind of fit the stereotype, he lived in a really run-down part of town. It was kind of stacked against him, I guess you could say.”

If Bruner remains dispassionate about the conviction, it’s probably because he was always ambivalent about his client’s innocence. In an affidavit signed in 2002, Bruner said he could not explain why he did not do more to investigate the case. “In retrospect,” it reads, “it is possible I just assumed Mr. Jones was guilty based upon the state’s version of the case.”

There was another factor stacking the case against Jones. Jurors had been screened for their willingness to impose a death sentence, although their job was solely to determine whether Jones was guilty. Studies have long shown that “death qualified” juries are more likely to convict. In Jones’s case, this meant any jurors with lingering doubts could still vote for a guilty verdict, while psychologically distancing themselves from the implications. As Stoecker recalls, the possible death sentence loomed heavy over the jury. Yet Poles was shocked to hear that Jones ended up on death row. She believed in his guilt, she told me. But “I don’t feel that his lawyers fought hard enough for him or to really prove his case. … If I had had his lawyers, I’d rather have shot myself in the foot myself.”

Poles was deeply affected by the trial. It began on her granddaughter’s birthday, she repeatedly recalled. Years later, after leaving Arizona and falling into a depression, Poles realized she was still hanging on to the memory of the trial. “And my therapist tells me, ‘You’ve got to let it go,’” she said. “I can’t let it go.” It’s not that she’s gripped with hatred toward Jones. She just cannot get over what was done to Rachel Gray.

Poles and Stoecker both told me about encounters they had following the trial that assured them they did the right thing. Poles said she got on the elevator with Mayer, who told her that “certain evidence was withheld from us that we didn’t know about.” The implication was that it further proved Jones’s guilt. “But she never did tell us what it was.”

Stoecker had a much stranger story. Days after the trial ended, she said, she ran into someone from the prosecutor’s office in the checkout lane while buying groceries. Stoecker said it was a woman — she thought it was a prosecutor — but could not recall who exactly. Regardless, “she recognized me,” Stoecker said, and mentioned evidence against Jones that had not been presented at trial. “But the evidence was that [Rachel] did regain consciousness” at the hospital, she said, and that before she died, “she claimed he basically assaulted her.”

The claim made no sense. The emergency room doctor estimated that Rachel died hours before she arrived at the hospital. Nor was there any reason such evidence would not be admissible at trial. However irrational, it made Stoecker feel better, at least temporarily.

Over email, Mayer declined to discuss the case. But she wrote, “I would never have told a juror or anyone else that Rachel had regained consciousness at the hospital,” she wrote, “so that conversation did not happen with me.”

The road from Tucson to Florence, Arizona, takes you out of the shadow of the Santa Catalina Mountains north to Highway 79. Two lanes lined with saguaros become Pinal Parkway, and soon, the Arizona State Prison Complex is impossible to miss. A long perimeter fence runs right alongside the road; at the intersection is the Blue Mist Motel, where relatives of death row prisoners sometimes stay the night before an execution. A trailer park houses workers across from the sprawling complex. In some ways, it resembles the Desert Vista.

Florence’s claim to fame is as the ultimate prison town. There are nine penitentiaries within a roughly 1-mile radius, both public and private. Each new prison project has brought promises of economic stability, but the local benefits are hard to discern. On a hot Saturday afternoon in September, the storefronts on Main Street were shuttered or empty. At the one open store — a cluttered thrift shop — pamphlets advertised jobs with the Arizona Department of Corrections.

At the Pinal County Historical Society and Museum, a glass display features nooses used for hangings, alongside black and white photos of the condemned. Beneath it, there’s the double execution chair used in 1934 to kill two brothers simultaneously in the gas chamber. Since Jones has been on death row, 33 people have been executed in the state, all but one using lethal injection.

In 1997, the year the Arizona Supreme Court upheld Jones’s conviction, he and others on death row were moved to Special Management Unit II, a new, high-tech experiment in punishment and isolation. The Tucson Weekly described how prisoners were “divorced from natural light except for the three hours a week spent alone in a narrow, concrete recreation pen.” Men were soon suffering psychological breakdowns. For Jones, who had a history of depression, the conditions would drive him close to suicide.

Others choose to hasten death with the help of the state. In 2000, Arizona killed Donald Miller, a “volunteer” who gave up his federal appeals. Among the witnesses to his execution was Sonia Pesqueira. She had investigated the murder that sent Miller to die. In a 2001 MSNBC documentary, Pesqueira expressed contempt toward his decision to “quit,” saying it was proof of his character.

Another witness featured in the film was a young, skinny defense investigator named Andrew Sowards. After the execution, he gave up murder cases for a while. But in 2008, Sowards went to work with the Arizona Federal Public Defender’s Office, arriving just as Jones’s federal habeas petition had been denied. As he traced the investigation to its origins, Sowards became increasingly convinced that Pesqueira — the same cop who had spoken so coldly about his old client — had helped send an innocent man to die.

In 2009, Sowards got access to the county attorney’s file in Jones’s case. “They claim to have an open file policy, and I wanted to go take a look,” he told me. The first box he opened contained a bunch of tapes. At the top was one that nobody in his office had ever seen. “It had never been disclosed, we didn’t have a copy of it in our file, we had never heard of it,” he said.

The tape featured a 1995 interview between a Pima County sheriff’s investigator and two young brothers. “Do you remember me, from seeing me before?” the investigator asked the older boy. She asked about an old injury on his chest. “Ryan, my brother, he took a piece of stick and sliced me,” the boy answered. He said it happened when his family was living somewhere else.

Sowards realized something was wrong. Ryan was the same child rumored to have hit Rachel with a metal bar, the boy whose mother abruptly abandoned the trailer park after Rachel’s death. His own parents had described him as a bully — and he was the same size as Rachel, despite being half her age. The tape certainly did not prove that the child was responsible for her death. But had it been disclosed to the defense before trial, as prosecutors were obligated to do, the tape would have provided critical corroborating evidence for Brandie’s testimony, possibly generating reasonable doubt among jurors. Instead, the state concealed the fact that they ever investigated the alternative scenario. In her closing statement to jurors, Mayer mocked the story about “the little boy who killed her with this sort of accidental thing with the metal stick.”

Sowards began obsessively pouring over the evidence. He tracked down a woman who had lived at the Desert Vista and briefly appeared in a report by Detective George Ruelas. She told Sowards that police had “grilled” her two young sons back in 1994, asking whether either of them hurt Rachel. But, like the interview with Ryan’s brother, this was not documented in the case file.

When Sowards sought to speak to Ruelas, he found him in a federal prison, convicted in a drug heist committed while working as a California Highway Patrol officer. Sowards wrote him a letter. He asked about several gaps in the investigation, including whether he or anyone else ever visited the Choice Market. Ruelas never replied.

Other critical pieces of evidence had long been missing. Among them were the blue panties that Rachel had been wearing when she was brought to Kino Hospital. Sowards was told by Pesqueira that they were most likely destroyed. But eventually, a portion of the underwear was found and tested for DNA, with no match to Jones or anyone else.

Litigation over the missing evidence and DNA testing led to a delay that would prove crucial for Jones. In 2012, the U.S. Supreme Court decided Martinez v. Ryan. Until the ruling, onerous procedural barriers governing cases like Jones’s dictated that, if attorneys failed to bring a claim of ineffective assistance during state post-conviction proceedings, that claim was forever barred from being heard in federal court. But Martinez carved out an exception, holding that if such a claim was itself the result of ineffective lawyering by post-conviction counsel, a defendant could have a new shot at relief.

A paralegal with the Federal Public Defender’s Office had reviewed the billing records from Jones’s post-conviction attorney. Several key files were not mentioned. The records suggested the attorney did not even read the full case, let alone thoroughly investigate it. In 2014, the 9th Circuit Court of Appeals remanded Jones’s case to a federal district judge, who reopened the door to federal court. As Jones’s current attorney, Assistant Federal Public Defender Cary Sandman, explains, “If his case had actually proceeded more rapidly through the system, in theory, he might have faced an execution before 2012 and had been dead already.”

But for all the missing evidence and holes in the investigation, perhaps the most important discovery made by Jones’s legal team were key changes in the testimony of Dr. John Howard, the medical examiner who was a state witness against both Gray and Jones. Just weeks apart, Howard gave conflicting accounts about the timing of the injury that killed Rachel. At Gray’s trial, Howard estimated that both the vaginal injury and the fatal intestinal wound were “most consistent” with occurring 24 hours or more before Rachel died. But when he took the stand against Jones, Howard testified to a shorter time frame, concluding that the injuries were consistent with being inflicted 12 hours before Rachel’s estimated time of death — precisely the window offered by the state for Jones’s trips in the van with her.

The failure to confront Howard is one mistake Bruner readily admits. He had attended Gray’s trial, he just did not pick up on the discrepancy. “I could have cross-examined him on that 24-hour/12-hour thing, and I missed that,” Bruner told me. “It’s an important case, I should have caught that, and I didn’t.”

In 2004, Howard provided Jones’s previous federal appellate attorneys with an affidavit explaining his testimony. “When I testify, I answer only the questions that are asked,” he said. If trial attorneys had asked whether Rachel’s fatal abdominal injury could have happened “more than 24 hours before her death, I would have answered the question in the affirmative.” Howard was unaware that Rachel had been described as looking sick as early as Saturday, April 30, two days before she was brought to the hospital. Her symptoms would be “consistent with the abdominal injury being inflicted prior to that time,” Howard said.

A slew of additional experts has since dismantled the medical evidence heard by jurors. Dr. Janice Ophoven, a renowned pediatric forensic pathologist who first reviewed the tissue slides and other evidence from Rachel’s autopsy in 2002, has long insisted that her intestinal injury “could not possibly have been inflicted on the day prior to her death.” She emphasized that “the veracity of this evidence is as scientifically precise as any forensic determination in medical science.” Dr. Mary Pat McKay, who first studied the same materials in 2009, says there is “absolutely zero evidence” that Rachel’s fatal injury occurred within 24 hours of death. And in an affidavit signed earlier this year, Dr. Phillip Keen — who was initially contacted by Leslie Bowman in 1994 to review the autopsy report, but never called to testify — said he agrees with Ophoven and McKay: “Rachel’s small bowel laceration was not inflicted on May 1, 1994, and thus Jones’s jury was misled to believe otherwise.”

In 2009, the same year Sowards found the tape hidden in the Jones file, the National Academy of Sciences released a landmark report raising questions about the reliability of a wide range of forensic practices. Of particular concern were disciplines based on “pattern matching,” which rely primarily on visual observation. The report singled out bloodstain interpretation as one such field, relying on analysis that is “more subjective than scientific.”

There was never much doubt that Sonia Pesqueira had testified outside of her expertise at Jones’s trial. The NAS report cast further doubt on her analysis. But in fact, it was worse than that. On the stand, Pesqueira said her training in bloodstain analysis had been taught by a woman named Judith Bunker, who held workshops for “law enforcement agencies and detectives worldwide.” This was true — Bunker was once lauded as a pioneer in blood interpretation; in 1980, the Fort Lauderdale News marveled at the “44-year-old grandma who is the only blood spatter analyst in Florida.” But while Bunker’s pupils went on to testify at trials, capital defense attorneys would find that she had grossly exaggerated her credentials, claiming to have years of technical experience in an era when she was working as a secretary to a medical examiner.

Over email, Bunker said she is retired and proud of her work. “I will stand on my background and training,” she wrote. “My qualifications were accepted in many courts throughout the country in bloodstain pattern analysis and reconstruction.” She added, “I cannot speak to what a former student does after they left my class.”

It is no surprise that Bunker was allowed to testify in courtrooms nationwide. Although judges are the “gatekeepers” who vet expert witnesses, most do not have the background to easily determine what is sound science and what is not. The same is true of lawyers, on both sides. In Arizona, high-profile exonerations like that of Ray Krone, sent to death row on bogus bite-mark evidence, have forced prosecutors to admit that flawed forensic evidence can send innocent people to prison.

In 2014, Pima County launched a Conviction Integrity Unit, tasked with investigating claims of actual innocence. Veteran prosecutor Rick Unklesbay was put in charge. The next year, Unklesbay joined Jones prosecutor Kathy Mayer, along with Krone himself, on a panel to discuss wrongful convictions. Mayer blamed the abuse of forensic evidence on “professionals acting unprofessionally.” Unklesbay stressed the need for prosecutors to police themselves. After all, when an innocent person is sent to prison, Unklesbay said, the real perpetrator “is free to offend again.”

The Pima County CIU had yet to exonerate anyone in June 2017 when Cary Sandman sent a letter to Unklesbay. It included a lengthy summary of the problems in Jones’s case, including the opinions of medical experts debunking the state’s timeline for Rachel’s fatal injury. Sandman explained that, pending the outcome of Jones’s upcoming evidentiary hearing, he had been told by the Arizona Attorney General’s Office that Unklesbay would be involved in any potential settlement of the case. He offered to meet and provide “any additional information you may request.”

In response, Unklesbay referred Sandman to the CIU’s website. The application guidelines were clear, he wrote: “The unit does not evaluate cases that are still proceeding on any form of appeal.” To Sandman, the reply was preposterous. In capital cases, habeas appeals don’t end “until the needle is inserted,” he said. “His response basically says to me that they’ll never look at a case that’s in litigation — and in a death penalty case, that means their office is just a sham.”

Over email, Unklesbay said he would “for obvious reasons” review a death penalty case involving an innocence claim. He said he did not remember his correspondence with Sandman. “If Jones should lose, the CIU can get involved,” he wrote.

A spokesperson for the Arizona attorney general declined to comment on the upcoming hearing for Jones. In its previous letter to Sandman saying the Pima County medical examiner did not dispute the findings of defense experts, the office said it did not plan to call a medical expert of its own. Yet the spokesperson told me it would be “completely inaccurate” to suggest that the original theory of the crime is no longer supportable. Arizona appears ready to defend its conviction of Jones. But it is not clear how.

In early August, Sandman deposed Sonia Pesqueira. She had recently retired, with a collection of awards and press coverage chronicling her decadeslong crusade for the state’s most vulnerable victims.

Sandman showed Pesqueira the statements from former Pima County Medical Examiner John Howard suggesting Rachel’s fatal injury occurred at least 24 hours before Rachel died. “This is all new to me,” she said. Pesqueira had never consulted him on the timing of Rachel’s injury. If she had known it had possibly been inflicted before Sunday, May 1, 1994, she said, she would have widened her investigation. Sandman brought up other holes in the investigation. For example, he asked what happened to the clothes Rachel wore on the day she was supposedly raped and beaten. They would potentially have significant forensic value. But there was no record they were ever collected. Pesqueira could not answer why.

When I first contacted Pesqueira for an interview in late August, she quickly agreed. “Although this case was 23 years ago, the images of what I saw are still vivid in my mind,” she wrote over email. But when I arrived in Tucson in September, she wrote that she had been taking care of her sick grandchildren and had come down with a fever herself.

A few days later, I stopped by her house in a pleasant neighborhood on Tucson’s east side. The entrance had a striking view of the Catalina Mountains and a sign reading “Bienvenidos.” There was nobody home. After I left her a note, Pesqueira sent a text message saying she was at the doctor’s office but could speak very briefly “because I will be busy after today.”

Pesqueira stood by her investigation. She speculated that the peritonitis could have taken effect faster in Rachel than in other children. She was 4 years old but “itty bitty,” no heavier than her own 2-year-old grandson, Pesqueira recalled. She denied any rush to judgment and maintained her belief that Jones is guilty. “He probably doesn’t want to accept the reality of it, that he did what he did,” she told me.

A short drive from Pesqueira’s home, the East Lawn Palms Mortuary is dotted with bright fake flowers, spaced in neat rows. Under a tree in an area called the Garden of Love, a stone marker reads “Rachel Yvonne Gray, 1990-1994,” carved with a shepherd and lambs. There are no flowers on the grave.

Angela Gray got out of prison in 2003. She declined to be interviewed. Years ago, in a letter to Jones’s post-conviction lawyer, Gray said she felt “the jury gave him justice for the victim.” But today, she no longer believes Jones killed or assaulted her daughter.

In a 2009 affidavit taken by Jones’s defense attorneys, Gray said she only ever suspected him because of his lie about going to the Rural Metro and the fact that he did not return to the hospital that morning in 1994. She said Rachel called Jones her “Best Buddy Barry,” and always wanted to tag along with him. Finally, Gray reiterated something she had always insisted: that some of the bruises seen on Rachel’s body at the hospital and during the autopsy had not been there on the night of May 1, 1994. “The morning that I found Rachel, I was freaking out,” Gray said. Carrying her from her bed to the van, “it is possible that I hit parts of her body against objects in the house.”

Jones has not spoken to Gray since going to death row. As his hearing nears, he is cautiously hopeful about the possibility of freedom. He is also “scared to death,” he said. “That’s not my world out there,” he told me in a brief phone call from prison. “This is my world in here.”

Jones said it bothers him that while everyone has been focused on his appeals for years, nobody seemed to remember Rachel, or the fact that her killer is still out there. “It’s been all about me,” he said. In his letters from jail, Jones used to describe visions of Rachel visiting him, either in dreams or hallucinations. He wondered if others were haunted by her death.

“I mean, she didn’t get to live a life, you know? That’s the thing … I couldn’t tell you much about her except she was just a sweet kid. She was crazy about going to the store. She wanted to drive up to the store every time we went up to Quik Mart. She wanted to be around the other kids. She wanted to play. … And right now, she’d be like 26, 27 years old, you know, and have a family of her own and everything, you know? And these are things that I think about, that I can’t quit thinking about, that maybe nobody else thinks about.”

Top photo: The van driven by Barry Lee Jones, where he was accused of raping and killing 4-year-old Rachel Gray in Tucson, Ariz.

On her second day of testimony at the U.S. District Court in Tucson, Arizona, retired Pima County Sheriff’s Sgt. Sonia Pesqueira squinted at the monitor on the witness stand. It showed an item found at a crime scene in a case she investigated back in 1994: the murder of a 4-year-old girl. The item — a letter recovered from a trailer where the child had lived — was just one piece of evidence that could have provided an early lead.

Assistant Arizona Federal Public Defender Cary Sandman asked Pesqueira if she recognized the document. She peered at the monitor. “I can’t see what it says,” she said. She had left her glasses at home.

“Can I stop you for a moment?” U.S. District Judge Timothy Burgess interrupted. It was not yet 10 a.m. The evidentiary hearing had been on the docket for months. He had traveled from Alaska to preside. “It is not acceptable for us to have planned for so long for this hearing and have the witness now tell us that she can’t read these documents,” he said.

Pesqueira apologized. But patience was in short supply. Her investigation had sent a man to death row. For 23 years, that man had sworn he was innocent. There were good reasons to think he might be telling the truth, but prosecutors had fought to preserve his conviction. Now, revisiting her role as lead investigator, Pesqueira gave vexing testimony. There were just too many clues she had apparently missed; conspicuous leads she had failed to see. The forgotten glasses were almost too obvious a metaphor.

Burgess asked Pesqueira how far away she lived. Thirty minutes, she said. Were her glasses over the counter? Yes. Burgess handed her his own glasses. She put them on and smiled. “That helps a lot,” she said.

Across the courtroom, Barry Jones sat in an orange jumpsuit, shackles, and a belly chain. He had not seen Pesquiera in over two decades. But he remembered her well. In 1994, she had mercilessly interrogated Jones at the Pima County Sheriff’s Department, accusing him of killing his girlfriend’s 4-year-old daughter, Rachel Gray. Jones had taken the little girl to the hospital hours before, but she was dead on arrival. She had a scalp laceration and was covered in bruises. She was also bleeding from her vagina. Before the medical examiner had determined a cause of death, Jones became Pesquiera’s sole suspect. In 1995, he was convicted of rape and murder and sentenced to die.

With his appeals exhausted, Jones got a lucky break in 2012: a U.S. Supreme Court ruling that would allow him back into federal court on the basis of ineffective assistance of counsel. Jones’s defense had been profoundly flawed. His trial lawyers failed to call a single expert witness, putting only his 12-year-old daughter on the stand. In 2017, Burgess granted Jones a rare evidentiary hearing to consider whether his defense violated his Sixth Amendment rights. If Jones prevailed, he could win a new trial — or even be released.

The seven-day hearing began in late October 2017, at the Evo A. DeConcini U.S. Courthouse, a six-story postmodern building on the edge of downtown Tucson. Among the first witnesses were Jones’s original attorneys, Sean Bruner and Leslie Bowman, who admitted to numerous failures in representing him at trial. They were followed by a procession of experts across forensic disciplines: pathology, biomechanics, psychology, and bloodstain interpretation. They gave compelling testimony that jurors had never heard — evidence that would likely have raised doubts about Jones’s guilt.

Burgess was attentive, asking lots of questions. Pesquiera was the penultimate witness. In a black top and bright blue cardigan, she carried the confidence of a veteran cop. Prosecutors from the Arizona Attorney General’s Office had asked that she be allowed to sit at their table throughout the hearing, a somewhat unusual request that signaled her enduring commitment to the case. But now, on the stand, Pesqueira seemed less self-assured — sometimes impossibly obtuse. When asked about a specific lead she never pursued, she conceded it was absent from her reports. “Which also means if it’s not in your report, you didn’t look at it?” Burgess asked. “I didn’t document it, yes,” Pesqueira repeated. There’s a difference between documenting and doing, the judge explained. “If you did something, you’d document it, right?” Yes, she said.

In other words, if it was not in the police report, it hadn’t been done.

The investigative records in the Jones case were riddled with holes. Most alarming, there was no sign that Pesqueira ever sought critical information about how, exactly, Rachel was killed. The child had died as a result of a sharp blow to the abdomen that perforated part of her small intestine, the duodenum. Leakage from the tear caused a deadly condition called peritonitis, which, if left untreated, can lead to septic shock. To estimate when the blow occurred, a pathologist testified, one would need to thoroughly investigate when Rachel showed her earliest symptoms of illness. Pesqueira never did.

Instead, she had drawn conclusions based on her own first impressions at the hospital. “I do my own examination,” she told the grand jury in 1994. “Medical personnel are not in the room.” Given Rachel’s appearance — and the estimate that she had died in the early hours of May 2, 1994 — Pesqueira concluded she had been fatally beaten the day before. This made Jones the likeliest suspect. In a deposition before the 2017 hearing, Pesqueira was asked if she had ever identified anyone who might have hurt Rachel in the days before May 1. “I had no reason to believe [her injury] had gone that long, so no,” she said.

If Pesqueira had expanded her investigation, she would have found plenty of alternative suspects. There was Rachel’s own mother, Angela Gray, for one. Unlike Jones, she had a reputation for abusing her kids. (“That would have been a good thing to have,” Pesqueira said at the hearing when shown a relative’s pretrial statement saying that Gray had hit her kids in the stomach and thrown them against the wall.) There was also a little boy whom Rachel had accused of hitting her in the stomach with a stick or an iron bar, according to kids at the trailer park. Pesqueira dismissed this as a rumor.

Yet another set of people might have been questioned about Rachel’s vaginal injury. The injury was likely much older than it appeared, doctors explained, possibly even predating the period of time during which Rachel lived with Jones. This introduced an array of other suspects. There was Rachel’s 14-year-old half-brother, who had a reputation for preying on girls at the trailer park. (The letter that prompted the exchange over the glasses was one clue about his sexual activity.) There was also her mother’s abusive ex-boyfriend, Zoly, with whom Rachel and her siblings had lived before moving in with Jones.

“I am trying to understand why there was no follow-up with Zoly,” Burgess told Pesqueira toward the end of her testimony. There was no evidence that Jones had ever bathed or dressed the kids in their brief time living with him. Was Zoly ever responsible for doing such things? “I don’t know that,” Pesqueira said.

“That would require interviewing him, right?” Burgess asked.

“Yes, sir,” she said.

Did she think this was important?

“Yes, sir.”

But Pesqueira could not explain why she had never spoken to Zoly. “I think I just — I didn’t do it.”

A week before the hearing in Tucson, The Intercept published a lengthy investigation into the case of Barry Jones. Based on police reports, juror interviews, and thousands of pages of court records, it revealed several hallmarks of wrongful convictions, from junk forensics to prosecutorial misconduct. At the center, however, was a police investigation that succumbed to tunnel vision from the start.

Jones first came under suspicion after leaving Rachel and her mother at Tucson’s Kino Community Hospital shortly after 6 a.m. on May 2, 1994. Law enforcement found it strange that he did not return — and before long, so did Gray. As she would tell Pesqueira, she and her three children had only lived with Jones at his home in the Desert Vista Trailer Park for a month or so. Gray said she’d spent most of the previous day asleep; when she woke up, Jones told her Rachel had fallen out of his parked work van, bloodying her head. He said he had taken her to the nearby Rural Metro Fire Station for medical attention. But later, Rachel started vomiting. She was thirsty but could not keep liquids down. After putting her to sleep, Gray found Rachel unresponsive the next morning, with her eyes rolled back in her head.

Jones would later admit that he had lied about taking Rachel to the fire station. He explained that he’d seen a cop there and he did not want to be caught driving with a suspended license. So he drove on to a Quik Mart, where he spotted a paramedic. The lie — and the fact that Jones had been seen taking Rachel on short trips in his van on the afternoon of May 1 — became the early basis for the state’s case. At trial, prosecutors also leaned on the eyewitness accounts of 8-year-old twins, Ray and Laura Lopez, who said they had seen a man who matched Jones’s description hitting a young girl while driving a van.

But despite the circumstantial evidence, there was no physical evidence linking Jones to Rachel’s injuries apart from some small drops of blood found on his clothes and the passenger side of the van. Nor was there any evidence he had raped her. The most critical items for forensic testing — such as the clothes Rachel and Jones were wearing on the day he allegedly assaulted her — were never even collected. Other vital pieces of evidence were lost, concealed, or destroyed.

Responsibility for the shoddy police work fell on Pesqueira. But the conviction also rested on the trial testimony of Dr. John Howard, a pathologist with the Pima County Medical Examiner’s Office. Howard had testified that Rachel’s fatal abdominal injury was inflicted some 12 hours before her death — an estimate that fell neatly within the window during which the state alleged Jones had Rachel in his van. This was the linchpin in the state’s case against Jones. Yet — in a serious discrepancy that Jones’s lawyers failed to catch — Howard had given a strikingly different calculation mere weeks earlier, at Gray’s trial. (She was convicted of child abuse but acquitted of murder.) There, Howard had testified that the abdominal injury was “most consistent” with occurring 24 hours or more before Rachel died, long before she was with Jones.

Whatever the reason for Howard’s disparate statements in 1995, the state’s medical timeline has since been dismantled. Beginning in 2002, experts hired by Jones’s federal public defenders firmly concluded that Rachel’s fatal injury could not possibly have occurred within the window presented at trial. In a significant concession, the Arizona Attorney General’s Office wrote to Jones’s attorneys in advance of the 2017 hearing acknowledging that the current Pima County medical examiner “did not dispute the conclusions of your experts.” Finally, Howard himself had since shifted his stance in multiple statements. If attorneys had asked whether Rachel’s fatal abdominal injury could have happened more than 24 hours before her death, he explained in 2004, “I would have answered the question in the affirmative.”

Nevertheless, the state denied that its case against Jones had fallen apart. In an email to The Intercept last fall, a spokesperson for the attorney general’s office rejected the notion as “completely inaccurate.” With its medical theory debunked, it seemed uncertain how Arizona would defend its case at the hearing in Tucson.

On the first day of the hearing, Assistant Attorney General Lacey Gard, who heads the capital unit for the Arizona solicitor general, made the answer clear: Prosecutors would double down on the original theory of the crime, never mind what medical experts, the current county medical examiner, or even Howard himself had said. “His opinions are the same now as they were at trial,” Gard declared in her opening statement.

Gard insisted the evidence still pointed to Jones, while reminding the court that the question of innocence was irrelevant: The matter at hand was Jones’s Sixth Amendment claim. Under the landmark U.S. Supreme Court case Strickland v. Washington, this meant Jones had to prove, first, that his original attorneys had been deficient, and second, that their failures were so severe that they affected the outcome of the case. But this second question was irrelevant, too, Gard argued. “There clearly was no deficiency.”

To prove this, Gard and her colleague Assistant Attorney General Myles Braccio pointed to a series of half-steps in the right direction. For example, Jones’s trial attorneys had contacted an independent pathologist, Dr. Philip Keen, back in 1994. They sent him Howard’s autopsy report, asked preliminary questions about the timing of Rachel’s injuries, and asked for a full review of the medical evidence. Yet there was no record that the additional materials were ever sent. There was proof of a short follow-up phone call, but no one actually remembered it. According to Braccio, the “only conclusion we can draw from these records” is that Keen had agreed with Howard. “Or that we dropped the ball and didn’t follow up properly,” Bowman, Jones’s former attorney, responded.

There were several such attempts by the state to recast the absence of evidence as a sign of a job well done. Braccio pointed to gaps in the lawyers’ billing records, suggesting they had done more work than the documents showed. This was a death penalty case after all, “and realizing these high stakes,” he asked Bowman, “you have no reason to believe, as you sit here today, that … you devoted anything other than your best efforts, correct?” When Bowman, who is now a magistrate judge, said she and Bruner had not put their best efforts forward, Braccio reminded her that, under Strickland, it did not actually matter what she thought now. It is an “objective standard,” not based in hindsight.

But perhaps most revealing was the state’s attempt to rationalize the failure to secure expert witnesses. Unlike Jones’s current federal public defenders, who can afford “very expensive experts,” Gard said, trial lawyers had to file motions to seek funding from the presiding judge. “They can’t control what the court is going to do, and that doesn’t make them ineffective if they don’t get the same amount of funding,” Gard said. Braccio built on the argument. Wasn’t it true, he asked Bowman, that the trial lawyers faced “significant funding obstacles” from the judge?

Both lawyers denied that funding for experts would have been a problem if they had tried harder to get it. Yet Jones’s post-conviction attorney disagreed. The culture throughout Arizona at the time “was that you didn’t get experts, you didn’t get investigators, you didn’t get transcripts,” he insisted, a fatalistic belief that seemed clearly not to have served his client. Outside the narrow legal framework of the hearing, the notion that Jones should remain on death row because the system itself was stacked against him was disturbing.

Although they are both in their late 30s, Braccio was nowhere near as seasoned a litigator as Gard. But he was not new to legal contests over whether someone should live or die. As a young paralegal in the wake of Ring v. Arizona — a seminal U.S. Supreme Court ruling that said juries, not judges, should decide whether to impose death sentences — Braccio worked on the case that prevented the decision from applying retroactively. Written by Justice Antonin Scalia, the 2004 ruling kept Jones on death row.

There was no disputing that the timing of Rachel’s injuries was central to the case — and that the state’s theory no longer held water.

With a cocky air, Braccio seemed eager to win. Yet his scattered and ham-fisted approach seemed to irritate Burgess. So did his habit of asking leading questions, prompting consistent objections sustained by the judge. At times, Burgess seemed simply confused. “I’m sorry. Counsel, you know, look, this isn’t a guessing game where the witness is supposed to figure out what the exhibit is,” he told Braccio at one point. When Braccio’s cross-examination went off the rails, Burgess did not hesitate to interject with questions of his own.

Burgess seemed especially interested in the medical testimony, for obvious reasons. There was simply no disputing that the timing of Rachel’s injuries was central to the case — and that the state’s theory no longer held water. Although there were some differences in their analysis, the medical experts called by Jones’s attorneys all deemed it impossible for Rachel to have been injured so close to her death. This included Keen, the same pathologist who had agreed in 1994 to review the autopsy materials but never received them. Keen had since reviewed images of the tissue slides and other items necessary to determining the timing of Rachel’s fatal injury. Contrary to Braccio’s speculation, Keen firmly concluded that the state’s timeline was wrong. “Rachel’s small bowel laceration was not inflicted on May 1, 1994,” he wrote in a 2017 affidavit, and “Jones’s jury was misled to believe otherwise.” Another doctor testified that there were “no reported cases in medical literature in which this type of injury has resulted in death in less than 48 hours.”

On November 1, Jones’s attorneys called Dr. Janice Ophoven, a nationally renowned pediatric forensic pathologist. Ophoven, who first reviewed the tissue slides and other autopsy materials in 2002, has remained adamant that the state’s case against Jones was fatally flawed. “There is no question that the child suffered injuries at the hands of another,” she wrote in 2010. But the evidence used to convict Jones was “absolutely incorrect.”

Ophoven estimated that Rachel’s fatal injury had taken place at least two or three days before she died. To explain, she used a diagram to locate the duodenum, the part of the small intestine where Rachel was fatally wounded. It lies in a “special space,” she explained, between the peritoneum, the lining of the abdominal cavity; and the retroperitoneum, the area behind it. This separation is difficult but critical to understand. Whatever ruptured Rachel’s duodenum, Ophoven said, the immediate effect — an inflammation that becomes more lethal as it spreads — was restricted to the retroperitoneum; it did not expand to the rest of the abdominal cavity until much later. As a result, the symptoms typically associated with an abdominal injury were significantly delayed. Rachel might have felt some discomfort and nausea, Ophoven said, but even doctors can misinterpret such symptoms, leaving the developing peritonitis undetected. Ophoven said she had seen cases in which children were seen by physicians who “pat them on the head and tell them it’s the flu, send them home, and they’re dead the next day.”

Rachel’s symptoms were consistent with this scenario, Ophoven explained. Her “unquenchable thirst” on the night before she died was a sign of dehydration — a precursor to irreversible shock that takes time to develop. An even more concrete indicator was a post-mortem analysis of fluid from Rachel’s eye. It showed “a derangement of body chemistries that takes considerable time,” Ophoven explained.

But the key to figuring out Rachel’s death, Ophoven said, was identifying the point when she started getting sick. A neighbor named Isobel Tafe had told Pesqueira that she saw Rachel looking gray and unwell on Saturday, April 30 — two days before her death. Ophoven considered this an important clue — “the gray color is kind of specific to this kind of process,” she testified. Yet Pesqueira had discarded the statement at the time. “I thought she was giving me the wrong day,” she recalled at the hearing. “The incident we were discussing would have occurred on Sunday.”

Cross-examining Ophoven, Gard suggested she was cherry-picking statements to suit her analysis. After all, Rachel’s older sister had said she looked fine on Sunday morning. Why accept Tafe’s observation while discounting 11-year-old Becky’s? “The evidence contradicts it,” Ophoven responded. Regardless, she was hamstrung by a lack of information. “I needed to look at the last time the child was well,” she said, “and that would have been what the investigation warranted had they not focused on Mr. Jones immediately.”

There was another critical piece to Ophoven’s testimony: an explanation for Rachel’s disturbing appearance at the hospital. Neither Jones nor Gray had recalled seeing so many bruises on Rachel the night before she died. At trial, Howard had expounded on the age of the bruises based on their color and appearance, suggesting Rachel had recently been pummeled. But Ophoven called such analysis “hogwash.” To accurately assess a bruise, she said, you have to examine the tissue beneath the skin. What’s more, her own work had taught her that when children arrive at the hospital in shock, “you’ll start to see marks appearing on their body,” along with spontaneous bleeding. This happens when the body is no longer able to clot blood, a harbinger of irreversible shock. While Ophoven believed that Rachel was a battered child, the bruises on her torso and abdomen — and the blood in her vagina — were not necessarily evidence of new injuries, she explained. They were signs of the “terminal event,” she said, the final stage in her death from peritonitis.

Day after day as the hearing wore on, Barry Jones sat at the defense table on the right side of the courtroom. The shackles dug into his ankles and a stun device made his arm sore. At 59, he looked nothing like he did the last time he was free. His whitening hair was combed back over his ears. Every morning since the hearing began, he had been woken up before dawn in his death row cell, waiting for the prison van to take him from Florence to Tucson.

Burgess had granted a request to allow Jones a free hand so that he could take notes, a portion of which were shared with me by his lawyers. “Mostly I am just writing so I can ignore the three police behind me and focus on other things than what is being said,” Jones wrote in neat blue cursive. Listening to the details of the case was like reopening an old wound, he wrote. To calm his nerves, Jones would try to distract himself.

Jones was buoyed by the presence of a handful of supporters in the courtroom. They included his niece and other family members he had not expected to see. He was especially surprised to see his older brother, Otis, a retired law enforcement officer who showed up with his wife. The brothers had not seen each other in years. No one from Rachel’s family was there. But after doing eight years in prison for child abuse, Angela Gray wrote in a 2009 affidavit that she no longer believed Jones had killed her daughter.

Jones was floored by the amount of technology surrounding him in the courtroom. The microphones and monitors were a reminder of how much the world had changed. As he marveled at the luxury of using an ordinary pen, life on the outside felt daunting. “Everyone is emailing, punching keys on their laptop computer, or using cellphones with the ability to take pictures,” he wrote one day. “Would someone like me fit in?”

Jones was especially glad to see Sylvia Lett, his former federal public defender, who has been a lifeline for him. At her home last fall, Lett showed me cards Jones had sent her over the years and described his guarded optimism about the upcoming hearing. “I think that he goes through real periods of time where he doesn’t want to hope,” she said. It was often easier to defer to his lawyers than to remain invested in every twist and turn of his appeals, so he’d say, “I trust you guys. I’m going to put my faith in you. I don’t need to hear about it,” Lett said. “And I think that has maybe also helped him in a weird way.”

Jones had good reason to keep from getting his hopes up. Courts have a tendency to give defense lawyers the benefit of the doubt when it comes to ineffective assistance claims. In Strickland, the Supreme Court held that judges must show deference to lower courts and “indulge a strong presumption that defense counsel was within the wide range of reasonable professional assistance.” This included cases in which missing records made it hard to assess whether lawyers’ performances were part of an overall strategy, which would blunt any attempt at relief.

In his notes, Jones repeatedly expressed gratitude toward his legal team, while trying hard to keep his optimism in check. Even if he died in prison, he wrote, at least he was able to come this far. But other times, he dared to imagine what it would be like to live outside. With the holidays coming, the prison had sent out the list of items at the “Christmas store,” products available for purchase from a private company. He would start saving money to buy canned oysters and clams, coffee, and some Hostess pies, he wrote. “I wonder how much Hostess apple and cherry pies cost on the outside?”

By the time the last witness took the stand at the evidentiary hearing, experts had thoroughly discredited the case against Jones. An accident reconstructionist had examined his old van and visited the site where the Lopez twins had claimed to see Jones hitting a little girl while driving. Considering their height, the motion of the vehicle, and the position of the little girl in the passenger seat, he said, “My conclusion overall was that they could not have seen what they said they saw.” A biomechanics expert echoed this view, describing the twins’ descriptions as “extremely questionable.” A forensic psychologist raised serious concern over the “excessive leading and suggestive questions” during the twins’ interview by police. And a bloodstain analyst cast doubt on the opinions of Pesqueira, who had testified at trial that the blood evidence indicated Jones had assaulted Rachel in the van despite lacking qualifications to back up such analysis.

In response, Braccio used a common courtroom tactic: asking how much they had been paid. It’s an easy way to cast an expert witness as a hired gun in front of a jury, but seemed less likely to impress a federal judge. More convincing were the questions that forced the experts to concede that there were too many unknown factors at play for their conclusions to be completely reliable. But once more, that got to the heart of the problem: the lack of investigation in 1994.

On November 7, 2017, Dr. John Howard took the stand — the state’s second and final witness. Thin, pale, and wearing glasses and a dark suit, Howard looked every bit the veteran pathologist. After providing an off-the-cuff history of medical examiners, he testified that he had conducted “well over” 8,000 autopsies over the course of his career, including hundreds on children under 5 years old. He has served as president of the National Association of Medical Examiners — the group that accredits forensic pathologists all over the country. Today he works for the Spokane County Medical Examiner in Washington state.

Despite his credentials, there were reasons to be concerned about Howard’s work beyond Jones’s case. Prior to his return to Tucson in 2017, the Washington Department of Health had launched an official investigation into Howard. There now were complaints pending in seven separate cases, where his autopsies had come under question, attracting the attention of the press. In one, he said a woman whose naked body was found bound in plastic and duct tape had died of a heart attack associated with alcoholism. In another, a body had been found cut in half and left in the woods — he said the cause of death was undetermined.

Whatever was going on in Spokane, in Tucson, it didn’t matter. Like the question of Jones’s innocence, that was a conversation for another day.

“You have testified now three times under oath on this, right? Would you expect that there be some consistency between those testimonies?”

The monitors in the gallery were darkened as Braccio led Howard through the graphic autopsy photos. He asked about Rachel’s injuries one at a time. There was the scalp laceration, which Jones had said occurred when Rachel had fallen out of his van. It was an acute injury, Howard said, likely having occurred within hours to a day of her death. Then there was the vaginal injury. Ophoven had testified it was likely “weeks old,” and Keen said he would not even put it in the same context as the abdominal injury — “It’s not in the death timeline.” Yet Howard said it showed no signs of being an old injury. “It could be a few hours, it could be a day.”

Finally, Braccio asked Howard about Rachel’s abdominal injury. “My opinion again is this is an acute injury, could be a few hours, typical of a day or the same day as death,” Howard said, reverting to his opinion at Jones’s trial. Braccio showed him his previous statements suggesting the injury might actually have preceded May 1, 1994. Did this change his opinion? No, Howard said. You cannot date an injury exactly, he explained. “It could be just a few hours, it could be 24 hours, it could potentially, or at least in theory, be longer.”

When Sandman stood to cross-examine Howard, he looked weary. The hearing had consumed his office for months. He had deep circles under his eyes. “You have testified now three times under oath on this, right?” Sandman asked, speaking quietly. Yes, Howard replied. “Would you expect that there be some consistency between those testimonies you’ve given on the timing of Rachel’s injures?”  It was all a matter of how the questions were worded, Howard explained.

Sandman showed Howard portions of his testimony from the Gray trial and compared them to his testimony at the Jones trial. Howard conceded they could be interpreted as different. “Wouldn’t it be important for you to explain why you are coming up with a different time frame when you testify in the Jones trial?” Burgess asked. Howard said maybe he had reviewed the case further after Gray’s trial and given it more thought. The answer did not impress Burgess. “You understand that in these trials there was a lot at stake, right?” he asked.

Yet it would not take long for Howard to change his testimony again. On redirect, Braccio asked Howard if, in fact, he believed the opinions had been the same at both trials. Yes, Howard said, only the wording was different. “Dr. Howard,” Sandman said moments later, “you just told the judge a couple of minutes ago that your testimony in the Gray trial and the Jones trial were different, weren’t they?”

It was confusing, even surreal. It certainly did not instill confidence in Howard’s opinions. If presented to a jury, Sandman told me after the hearing, “I think they would have to conclude that Dr. Howard doesn’t know anything about when any of this happened.”

Yet this was not necessarily the most troubling part of Howard’s testimony in Tucson. Before the hearing ended, Burgess asked about other autopsies Howard had performed on young kids who died of peritonitis, inquiring what portion involved death within 24 hours of injury. “I’d say most of them, as I recall, but I can’t be certain,” Howard responded. He added, “There are many recorded cases of that.”

This clashed wildly with the previous experts’ testimony. Burgess wanted to be clear about what he was hearing. “So your testimony is you think there are many recorded cases in which there has been a similar injury to the duodenum that resulted in death in 24 hours or less?” Yes, Howard answered.

Burgess told Howard what the court had previously heard, specifically that there were no reported cases in published medical literature in which the same type of injury had resulted in death in less than 48 hours. “Hmm,” Howard muttered. He was unaware of that. “You think you have personally seen instances that you’ve worked on in which this has happened?” Burgess asked. “Yes,” Howard said. “In less than 24 hours?” Yes, he repeated. And the literature would support this? Howard began to say that not all medical literature is published when Burgess interrupted. “I think words are important,” the judge said. He was not asking what might exist in a file somewhere. Howard said he was not prepared to answer that. He would have to review the literature himself.

In an email following the hearing, Howard shared the results of his subsequent online search, which he also sent to prosecutors. It had taken him less than three minutes to find literature to support his testimony, he wrote, pasting in three short paragraphs from a 1997 article in a British medical journal, which contained a short description of a 4-year-old girl with a fatally ruptured duodenum and other injuries. The girl had presented “a one day history of increasing abdominal pain,” it said. This line was in bold and italics. He included no other examples. He also misspelled Rachel Gray.

If Arizona prosecutors considered Howard’s finding convincing, they chose not to include it in their post-hearing brief. For her part, Ophoven found the excerpt “meaningless.” It lacked basic details, she said. “We have no idea when the actual blow occurred that caused the fatality. We don’t know if the cause of the death in the belly was peritonitis. … That case report doesn’t tell us anything.”

Lawyers on both sides filed their final briefs in January. An oral argument is scheduled for March 2.