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Jack and the FBI must secure the biological weapon before it is released on the subway, Olivia is forced to make the transaction on Jonas Hodges murder in order to be protected, and Kim suspects she is being followed at the airport. There is friction between Chloe and Janis at the FBI. Later, Jack is forced to help the terrorists in order to protect someone close to him.
Jack goes back into the field to help the FBI track down Tony and the bio-weapon canister, but his decaying condition begins to be a liability. Tony uses Jibraan's brother as leverage to force him to record an admission of guilt for the attacks on the US throughout the day. Olivia's rage at Hodges's freedom takes her down a dark path that she might not be ready for.
The nation remains vulnerable as Jonas Hodges' life lies in the balance, and his boss stands at the epicenter of the mounting terrorist threat. Meanwhile, Jack hurries to expose Tony Almeida's doublecross.
As Jack's pain worsens, he attempts to uncover the mole in the organisation; Renee is stunned by an unexpected death; and, with one canister of the virus still missing, Jonas Hodges is given an ultimatum by his bosses...
Hodges meets with President Taylor to outline his demands involving Starkwood having a seat at the highest government level, but Tony's plan to detonate Starkwood's weapons systems dramatically reverses the control of power. Renee calls in Kim Bauer to see her dad, who refuses to get her involved in a possible treatment option to stop the degeneration caused by the bio weapon. One Starkwood operative manages to sneak a canister off the premises and is pursued by Larry.
Hodges threatens war on the FBI if they do not retreat from his property, but quick thinking by Tony and Moss shed new light on the whereabouts of the biological weapons. Jack begins to show symptoms of his exposure, but refuses to try a possible antidote when he learns it would involve stem cells from his daughter. Olivia is blackmailed by a news reporter into giving up the breaking story unfolding at the White House.
Tony leads a group of FBI agents into Starkwood with the help of Hodges's aide, but finds that his intel might not be as accurate as he thought. Olivia moves her way deeper into her mother's inner circle when she is appointment as acting Chief of Staff, and chooses Aaron Pierce to be her personal bodyguard. Jack learns harsh news about his future after being examined by CDC.
Jack and Tony manage to locate the incoming biological weapons, but must convince a civilian security guard to go along with their plan when men from Starkwood show up to claim the weapons. After gaining control of the cargo, Jack engages in a gunfight with the terrorists and risks exposure when the canister is damaged. Ethan makes a drastic decision which upsets President Taylor.
Jack seeks Senator Mayer's help to help discover the connection between Juma and the company that hired the man who killed Burnett. In an effort to track down Jack, Larry recruits Morris O'Brian in exchange for Chloe's immunity. Ethan becomes suspicious of Olivia when a reporter obtains leaked information about the internal affairs of the White House after Juma's attack.
The siege on the White House reaches an explosive end after Jack and Bill work together to try and save President Taylor. Meanwhile, Jonas Hodges makes moves to cover his own tracks, starting with Ryan Burnett.
Juma and his men take the White House by storm, killing most of the Secret Service and trapping Taylor and Jack in the saferoom. His efforts to extract her are thwarted until he is informed that the President's daughter is in the White House as well. Renee and Larry try to convince Vice President Hayworth to let them rescue the President, but Hayworth will not budge until the FBI can produce proof that she is not in imminent danger.
Jack and Tony hatch a plan to interrogate Burnett inside the White House, but it is interrupted when Senator Mayer and the President discover his activities. Chloe is under suspicion from Janis when she helps buy Jack some time by deleting Burnett's name from Dubaku's list. Renee traces Juma's team to the docks where she makes a split-second decision that puts her life in jeopardy.
Dubaku's attempt to flee the country is cut short when his decision to take his girlfriend along proves to be his undoing, and leads to a breakthrough for Jack and Renee. The moles within the FBI are uncovered when Chloe's decryption skills are put to the test by Sean who attempts a last-ditch effort to save himself.
Jack and Renee track a lead to Dubaku's unsuspecting girlfriend, who, after learning of his true motives, agrees to help lead them to Dubaku before he flees the country. Meanwhile, Chloe O'Brian is brought in to the FBI to run tactical, but her progress is thwarted by a mole inside the agency. President Taylor is stunned to hear that her husband has been shot and is escorted to the hospital by Bill. She requests that her daughter be brought in, a task which Bill delegates to an old friend.
Jack and Bill win an audience with the President in order to secure the necessary clearance to continue their hunt for Dubaku. Dubaku counterstrikes by kidnapping Henry and using him as bait to force President Taylor to withdraw her troops from Sangala. Renee has to make a terrible choice when she holds the family of one of Dubaku's associates at gunpoint to obtain his whereabouts.
Dubaku begins another strike against a chemical plant in Kidron, Ohio, but his plans are cut short when Jack's team arrives at his hideout. Janis helps the plant manager avoid any casualties by manually overriding the valves. Meanwhile, Ethan becomes increasingly concerned about the whereabouts of the First Gentleman and informs the president that Henry is missing. Dubaku orders Henry brought to him to use as leverage.
President Taylor is faced with an angry cabinet after an unpopular decision results in the loss of many American lives in a terrorist attack. Jack and Tony convince Prime Minister Matobo to go along with their plan when their undercover mission is revealed in a showdown with Emerson. Meanwhile, Henry is stuck in an unthinkable situation, paralyzed and unable to help Samantha Roth when she returns home to find Agent Gedge in her apartment.
Jack and Tony use creative means to force Matobo out of his saferoom and prepare to leave with their prisoner when Agent Walker arrives on the scene, prompting Emerson to make some quick decisions.
Agents Moss and Gold are sidetracked from their mission to find Walker when a representative from the Attorney General's office arrives to question them regarding the interrogation of Tanner.
Henry receives new information about the death of his son when he follows a lead from Samantha Roth.
Buchanan takes Jack to "CTU", a secret hideout where he and Chloe had been working with Tony to uncover the conspiracy within the US government. Tony had been undercover with the terrorists aiding Juma to discover the moles. Jack agrees to help get Tony back in play by joining Emerson's crew himself. Taylor is forced to meet with Matobo to inform him that she may be required to withdraw her forces from Sangala to protect American lives. Her Chief of Staff, Ethan Kanin, agrees with this decision, but Taylor is not yet convinced. Henry meets with Samantha, Roger's former girlfriend, who tells him that Roger was indeed murdered and provides him with proof.
With Tony in custody, Jack leads his interrogation, but is shocked when a code word Tony whispers in his ear leads to old friends and a plot much deeper than anyone in the FBI anticipated. Jack once again takes the law into his own hands when he breaks Tony out of the FBI's custody to deliver him back to the terrorist faction.
Renee asks FBI technician Janis Gold to try to uncover a possible leak in the agency, but Janis is terrified when her discoveries point to fellow analyst Sean Hillinger.
Colonel Dubaku sends a message to Taylor, insisting that the US withdraw its forces from Sangala, or risk a terrible attack on their soil.
Tony and his crew put their CIP override device to the test as they divert two planes in mid-air, nearly causing a collision and hundreds of casualties. With the successful test of the device, Tony's boss, Emerson, delivers it to General Juma who is planning to use it to blackmail the US. Jack follows up a lead with Renee but is convinced there is a leak inside the FBI when their suspect is shot dead by a sniper before he can give up any useful information. He is proven right when the fleeing shooter leads them to Tony's boat. Meanwhile, Taylor meets with former Sangalan president Matobo to convince him to hold Juma accountable for his crime in a proper court, not trial by angry mob. Henry continues his quest to find out the truth about his son by visiting his girlfriend, Samantha.
Season seven opens with Jack Bauer before the US Senate, defending his actions throughout his career with CTU, mostly involving human rights crimes and torture of suspects. He is pulled away by FBI agents Renee Walker and Larry Moss, who need his help to quickly locate Tony Almeida, once thought dead, who appears to be masterminding a terrorist plot to override the government's CIP firewall and cause massive damage. Meanwhile, President Allison Taylor struggles with how to best deal with the genocide unfolding in the African nation of Sangala under the command of General Juma. The First Gentleman, Henry Taylor, is distracted by a desire to prove that his son's recent suicide was in fact a murder.
Set and shot on location in Africa, Bauer and mentor Carl Benton battle an international crisis, while here at home the nation prepares for a new president on inauguration day. Taking place just a few months before the new day dawns, U.S. State Department officer Frank Tramell and Jonah Hodges are pulling the strings that will set the stage and raise the stakes for Season Seven.
