By Anand  Gopal
 [The research for this story was supported by the Fund for Investigative Journalism.]
 One quiet, wintry night last year in the eastern Afghan town of  Khost, a young government employee named Ismatullah simply vanished.  He  had last been seen in the town’s bazaar with a group of friends. Family  members scoured Khost’s dust-doused streets for days. Village elders  contacted Taliban commanders in the area who were wont to kidnap  government workers, but they had never heard of the young man. Even the  governor got involved, ordering his police to round up nettlesome  criminal gangs that sometimes preyed on young bazaar-goers for ransom.
 But the hunt turned up nothing. Spring and summer came and went with  no sign of Ismatullah. Then one day, long after the police and village  elders had abandoned their search, a courier delivered a neat,  handwritten note on Red Cross stationary to the family.  In it,  Ismatullah informed them that he was in Bagram, an American prison more  than 200 miles away. U.S. forces had picked him up while he was on his  way home from the bazaar, the terse letter stated, and he didn’t know  when he would be freed.
 
               Sometime in the last few years, Pashtun villagers in Afghanistan’s  rugged heartland began to lose faith in the American project. Many of  them can point to the precise moment of this transformation, and it  usually took place in the dead of the night, when most of the country  was fast asleep. In the secretive U.S. detentions process, suspects are  usually nabbed in the darkness and then sent to one of a number of  detention areas on military bases, often on the slightest suspicion and  without the knowledge of their families. 
 This process has become even more feared and hated in Afghanistan  than coalition airstrikes. The night raids and detentions, little known  or understood outside of these Pashtun villages, are slowly turning  Afghans against the very forces they greeted as liberators just a few  years ago.
 One Dark Night in November
 It was the 19th of November 2009, at 3:15 am. A loud blast  awoke the villagers of a leafy neighborhood outside Ghazni city, a town  of ancient provenance in the country’s south. A team of U.S. soldiers  burst through the front gate of the home of Majidullah Qarar, the  spokesman for the Minister of Agriculture. Qarar was in Kabul at the  time, but his relatives were home, four of whom were sleeping in the  family’s one-room guesthouse. One of them, Hamidullah, who sold carrots  at the local bazaar, ran towards the door of the guesthouse. He was  immediately shot, but managed to crawl back inside, leaving a trail of  blood behind him. Then Azim, a baker, darted towards his injured  cousin.  He, too, was shot and crumpled to the floor. The fallen men  cried out to the two relatives remaining in the room, but they -- both  children -- refused to move, glued to their beds in silent horror.
 The foreign soldiers, most of them tattooed and bearded, then went on  to the main compound. They threw clothes on the floor, smashed dinner  plates, and forced open closets. Finally, they found the man they were  looking for: Habib-ur-Rahman, a computer programmer and government  employee. Rahman was responsible for converting Microsoft Windows from  English to the local Pashto language so that government offices could  use the software. He had spent time in Kuwait, and the Afghan translator  accompanying the soldiers said they were acting on a tip that Rahman  was a member of al-Qaeda.
 They took the barefoot Rahman and a cousin of his to a helicopter  some distance away and transported them to a small American base in a  neighboring province for interrogation. After two days, U.S. forces  released Rahman’s cousin. But Rahman has not been seen or heard from  since.
 “We’ve called his phone, but it doesn’t answer,” says his cousin  Qarar, the spokesman for the agriculture minister. Using his powerful  connections, Qarar enlisted local police, parliamentarians, the  governor, and even the agriculture minister himself in the search for  his cousin, but they turned up nothing. Government officials who  independently investigated the scene in the aftermath of the raid and  corroborated the claims of the family also pressed for an answer as to  why two of Qarar’s family members were killed. American forces issued a  statement saying that the dead were “enemy militants [that] demonstrated  hostile intent.”  
 Weeks after the raid, the family remains bitter. “Everyone in the  area knew we were a family that worked for the government,” Qarar says.  “Rahman couldn’t even leave the city because if the Taliban caught him  in the countryside they would have killed him.”
 Beyond the question of Rahman’s guilt or innocence, however, it’s how  he was taken that has left such a residue of hate and anger among his  family. “Did they have to kill my cousins? Did they have to destroy our  house?” Qarar asks. “They knew where Rahman worked. Couldn’t they have  at least tried to come with a warrant in the daytime? We would have  forced Rahman to comply.”
 “I used to go on TV and argue that people should support this  government and the foreigners,” he adds. “But I was wrong. Why should  anyone do so? I don’t care if I get fired for saying it, but that’s the  truth.”
 The Dogs of War
 Night raids are only the first step in the American detention process  in Afghanistan. Suspects are usually sent to one among a series of  prisons on U.S. military bases around the country. There are officially  nine such jails, called Field Detention Sites in military parlance. They  are small holding areas, often just a clutch of cells divided by  plywood, and are mainly used for prisoner interrogation.
 In the early years of the war, these were but way stations for those  en route to Bagram prison, a facility with a notorious reputation for  abusive behavior. As a spotlight of international attention fell on  Bagram in recent years, wardens there cleaned up their act and the  mistreatment of prisoners began to shift to the little-noticed Field  Detention Sites.
 Of the 24 former detainees interviewed for this story, 17 claim to  have been abused at or en route to these sites. Doctors, government  officials, and the Afghan Independent Human Rights Commission, a body  tasked with investigating abuse claims, corroborate 12 of these claims.
 
One of  these former detainees is Noor Agha Sher Khan, who used to be a police  officer in Gardez, a mud-caked town in the eastern part of the country.  According to Sher Khan, U.S. forces detained him in a night raid in 2003  and brought him to a Field Detention Site at a nearby U.S. base.  “They  interrogated me the whole night,” he recalls, “but I had nothing to  tell them.” Sher Khan worked for a police commander whom U.S. forces had  detained on suspicion of having ties to the insurgency. He had  occasionally acted as a driver for this commander, which made him  suspicious in American eyes.
 The interrogators blindfolded him, taped his mouth shut, and chained  him to the ceiling, he alleges. Occasionally they unleashed a dog, which  repeatedly bit him. At one point, they removed the blindfold and forced  him to kneel on a long wooden bar. “They tied my hands to a pulley  [above] and pushed me back and forth as the bar rolled across my shins. I  screamed and screamed.”  They then pushed him to the ground and forced  him to swallow 12 bottles worth of water. “Two people held my mouth open  and they poured water down my throat until my stomach was full and I  became unconscious. It was as if someone had inflated me.” he says.  After he was roused from his torpor, he vomited the water  uncontrollably.
 This continued for a number of days; sometimes he was hung upside  down from the ceiling, and other times blindfolded for extended periods.  Eventually, he was sent on to Bagram where the torture ceased. Four  months later, he was quietly released, with a letter of apology from  U.S. authorities for wrongfully imprisoning him.
 An investigation of Sher Khan’s case by the Afghan Independent Human  Rights Commission and an independent doctor found that he had wounds  consistent with the abusive treatment he alleges. U.S. forces have  declined to comment on the specifics of his case, but a spokesman said  that some soldiers involved in detentions in this part of the country  had been given unspecified “administrative punishments.” He added that  “all detainees are treated humanely,” except for isolated cases.
 The Disappeared 
 Some of those taken to the Field Detention Sites never make it to  Bagram, but instead are simply released after authorities deem them to  be innocuous. Even then, some allege abuse. Such was the case with Hajji  Ehsanullah, snatched one winter night in 2008 from his home in the  southern province of Zabul. He was taken to a detention site in Khost  Province, some 200 miles away. He returned home 13 days later, his skin  scarred by dog bites and with memory difficulties that, according to his  doctor, resulted from a blow to the head. U.S. forces had dropped him  off at a gas station in Khost after three days of interrogation.  It  took him ten more days to find his way home.
 Others taken to these sites never end up in Bagram for an entirely  different reason. In the hardscrabble villages of the Pashtun south,  where rumors grow more abundantly than the most bountiful crop, locals  whisper tales of people who were captured and executed. Most have no  evidence. But occasionally, a body turns up. Such was the case at a  detention site on an American military base in Helmand province, where  in 2003 a U.S. military coroner wrote in the autopsy report of a  detainee who died in U.S. custody (later made available through the  Freedom of Information Act): “Death caused by the multiple blunt force  injuries to the lower torso and legs complicated by rhabdomyolysis  (release of toxic byproducts into the system due to destruction of  muscle). Manner of death is homicide.”
 In the dust-swept province of Khost one day this past December, U.S.  forces launched a night raid on the village of Motai, killing six people  and capturing nine, according to nearly a dozen local government  authorities and witnesses. Two days later, the bodies of two of those  detained -- plastic cuffs binding their hands -- were found more than a  mile from the largest U.S. base in the area. A U.S. military spokesman  denies any involvement in the deaths and declines to comment on the  details of the raid. Local Afghan officials and tribal elders, however,  steadfastly maintain that the two were killed while in U.S. custody.  American authorities released four other villagers in subsequent days.  The fate of the three remaining captives is unknown.
 The matter might be cleared up if the U.S. military were less  secretive about its detention process. But secrecy has been the order of  the day. The nine Field Detention Sites are enveloped in a blanket of  official secrecy, but at least the Red Cross and other humanitarian  organizations are aware of them. There may, however, be others whose  existences on the scores of military bases that dot the country have not  been disclosed. One example, according to former detainees, is the  detention facility at Rish Khor, an Afghan army base that sits atop a  mountain overlooking the capital, Kabul.
 One night last year, U.S. forces raided Zaiwalat, a tiny village that  fits snugly into the mountains of Wardak Province, a few dozen miles  west of Kabul, and netted nine locals. They brought the captives to Rish  Khor and interrogated them for three days. “They kept us in a  container,” recalls Rehmatullah Muhammad, one of the nine. “It was made  of steel. We were handcuffed for three days continuously. We barely  slept those days.” The plain-clothed interrogators accused Rehmatullah  and the others of giving food and shelter to the Taliban. The suspects  were then sent on to Bagram and released after four months.  (A number  of former detainees said they were interrogated by plainclothed  officials, but they did not know if these officials belonged to the  military, the CIA, or private contractors.)
Afghan human rights  campaigners worry that U.S. forces may be using secret detention sites  like Rish Khor to carry out interrogations away from prying eyes. The  U.S. military, however, denies even having knowledge of the facility.
 The Black Jail
 Much less secret is the final stop for most captives: the Bagram  Internment Facility. These days ominously dubbed “Obama’s Guantanamo,”  Bagram nonetheless offers the best conditions for captives during the  entire detention process.
 Its modern life as a prison began in 2002, when small numbers of  detainees from throughout Asia were incarcerated there on the first leg  of an odyssey that would eventually bring them to the U.S. detention  facility at Guantanamo Bay, Cuba. In the years since, however, it has  become the main destination for those caught within Afghanistan as part  of the growing war there.  By 2009, the inmate population had swelled to  more than 700.  Housed in a windowless old Soviet hangar, the prison  consists of two rows of serried cage-like cells bathed continuously in  white light.  Guards walk along a platform that runs across the  mesh-tops of the pens, an easy position from which to supervise the  prisoners below.
 Regular, even infamous, abuse in the style of Iraq’s Abu Ghraib  prison marked Bagram’s early years. Abdullah Mujahed, for example, was  apprehended in the village of Kar Marchi in the eastern province of  Paktia in 2003. Mujahed was a Tajik militia commander who had led an  armed uprising against the Taliban in their waning days, but U.S. forces  accused him of having ties to the insurgency.  “In Bagram, we were  handcuffed, blindfolded, and had our feet chained for days,” he recalls.  “They didn’t allow us to sleep at all for 13 days and nights.” A guard  would strike his legs every time he dozed off.  Daily, he could hear the  screams of tortured inmates and the unmistakable sound of shackles  dragging across the floor.
 Then, one day, a team of soldiers dragged him to an aircraft, but  refused to tell him where he was going. Eventually he landed at another  prison, where the air felt thick and wet. As he walked through the row  of cages, inmates began to shout, “This is Guantanamo! You are in  Guantanamo!” He would learn there that he was accused of leading the  Pakistani Islamist group Lashkar-e-Taiba (which in reality was led by  another person who had the same name and who died in 2006). The U.S.  eventually released him and returned him to Afghanistan.
 Former Bagram detainees allege that they were regularly beaten,  subjected to blaring music 24 hours a day, prevented from sleeping,  stripped naked, and forced to assume what interrogators term “stress  positions.” The nadir came in late 2002 when interrogators beat two  inmates to death.
 The U.S. Special Forces also run a second, secret prison somewhere on  Bagram Air Base that the Red Cross still does not have access to.  Used  primarily for interrogations, it is so feared by prisoners that they  have dubbed it the “Black Jail.”
 One day two years ago, U.S. forces came to get Noor Muhammad, outside  of the town of Kajaki in the southern province  of Helmand. Muhammad, a  physician, was running a clinic that served all comers -- including the  Taliban. The soldiers raided his clinic and his home, killing five  people (including two patients) and detaining both his father and him.  The next day, villagers found the handcuffed corpse of Muhammad’s  father, apparently dead from a gunshot.
 The soldiers took Muhammad to the Black Jail. “It was a tiny, narrow  corridor, with lots of cells on both sides and a big steel gate and  bright lights. We didn’t know when it was night and when it was day.” He  was held in a concrete, windowless room, in complete solitary  confinement. Soldiers regularly dragged him by his neck, and refused him  food and water. They accused him of providing medical care to the  insurgents, to which he replied, “I am a doctor.  It’s my duty to  provide care to every human being who comes to my clinic, whether they  are Taliban or from the government.”
 Eventually, Muhammad was released, but he has since closed his clinic  and left his home village. “I am scared of the Americans and the  Taliban,” he says. “I’m happy my father is dead, so he doesn’t have to  experience this hell.”
 Afraid of the Dark
 Unlike the Black Jail, U.S. officials have, in the last two years,  moved to reform the main prison at Bagram. Torture there has stopped,  and American prison officials now boast that the typical inmate gains 15  pounds while in custody. Sometime in the early months of this year,  officials plan to open a dazzling new prison -- that will eventually  replace Bagram -- with huge, airy cells, the latest medical equipment,  and rooms for vocational training. The Bagram prison itself will be  handed over to the Afghans in the coming year, although the rest of the  detention process will remain in U.S. hands.
 But human rights advocates say that concerns about the detention  process still remain. The U.S. Supreme Court ruled in 2008 that inmates  at Guantanamo cannot be stripped of their right to habeas corpus,  but stopped short of making the same argument for Bagram.  (U.S.  officials say that Bagram is in the midst of a war zone and therefore  U.S. domestic civil rights legislation does not apply.) Unlike  Guantanamo, inmates there do not have access to a lawyer. Most say they  have no idea why they have been detained.  Inmates do now appear before a  review panel every six months, which is intended to reassess their  detention, but their ability to ask questions about their situation is  limited. “I was only allowed to answer yes or no and not explain  anything at my hearing,” says Rehmatullah Muhammad.
 Nonetheless, the improvement in Bagram’s conditions begs the  question: Can the U.S. fight a cleaner war? This is what Afghan war  commander General Stanley McChrystal promised this summer: fewer  civilian casualties, fewer of the feared house raids, and a more  transparent detention process.
 The American troops that operate under NATO command have begun to  enforce stricter rules of engagement:  they may now officially hold  detainees for only 96 hours before transferring them to the Afghan  authorities or freeing them, and Afghan forces must take the lead in  house searches. American soldiers, when questioned, bristle at these  restrictions -- and have ways of circumventing them. “Sometimes we  detain people, then, when the 96 hours are up, we transfer them to the  Afghans,” says one U.S. Marine, who spoke on the condition of anonymity.  “They rough them up a bit for us and then send them back to us for  another 96 hours. This keeps going until we get what we want.”
 A simpler way of dancing around the rules is to call in the U.S.  Special Operations Forces -- the Navy SEALS, Green Berets, and others --  which are not under NATO command and so are not bound by the stricter  rules of engagement.  These elite troops are behind most of the night  raids and detentions in the search for “high-value suspects.” U.S.  military officials say in interviews that the new restrictions have not  affected the number of raids and detentions at all. The actual change,  however, is more subtle: the detention process has shifted almost  entirely to areas and actors that can best avoid public scrutiny:  Special Operations Forces and small field prisons.
 The shift signals a deeper reality of war, American soldiers say: you  can’t fight guerrillas without invasive raids and detentions, any more  than you could fight them without bullets. Through the eyes of a U.S.  soldier, Afghanistan is a scary place. The men are bearded and turbaned.  They pray incessantly. In most of the country, women are barred from  leaving the house. Many Afghans own a Kalashnikov. “You can’t trust  anyone,” says Rodrigo Arias, a Marine based in the northeastern province  of Kunar. “I’ve nearly been killed in ambushes but the villagers don’t  tell us anything. But they usually know something.”
 An officer who has worked in the Field Detention Sites says that it  takes dozens of raids to turn up a useful suspect. “Sometimes you’ve got  to bust down doors. Sometimes you’ve got to twist arms. You have to  cast a wide net, but when you get the right person it makes all the  difference.” 
 For Arias, it’s a matter of survival. “I want to go home in one  piece. If that means rounding people up, then round them up.” To  question this, he says, is to question whether the war itself is worth  fighting. “That’s not my job. The people in Washington can figure that  out.”
 If night raids and detentions are an unavoidable part of modern  counterinsurgency warfare, then so is the resentment they breed.  “We  were all happy when the Americans first came. We thought they would  bring peace and stability,” says former detainee Rehmatullah. “But now  most people in my village want them to leave.” A year after Rehmatullah  was released, his nephew was taken. Two months later, some other  villagers were grabbed.
 It has become a predictable pattern: Taliban forces ambush American  convoys as they pass through the village, and then retreat into the  thick fruit orchards that cover the area. The Americans then return at  night to pick up suspects. In the last two years, 16 people have been  taken and 10 killed in night raids in this single village of about 300,  according to villagers. In the same period, they say, the insurgents  killed one local and did not take anyone hostage. 
 The people of this village therefore have begun to fear the night  raids more than the Taliban. There are now nights when Rehmatullah’s  children hear the distant thrum of a helicopter and rush into his room.  He consoles them, but admits he needs solace himself. “I know I should  be too old for it,” he says, “but this war has made me afraid of the  dark.”
 Anand Gopal has reported in Afghanistan for the Christian  Science Monitor and the Wall Street Journal.  His  dispatches can be read at anandgopal.com. He is currently working on a  book about the Afghan war.  This piece appears in print in the latest  issue of the Nation magazine.  To  catch him in an audio interview with TomDispatch’s Timothy MacBain  discussing how he got this story, click here.