A gun-wielding man claiming to have a long-undiagnosed illness takes hostages at the hospital in order to get a diagnosis from House.
Terry discovers that a "tough love" boarding school where his classmates are being sent is more like a medieval prison.
In the season finale, a violent battle for control erupts on the submarine, which leaves the Colorado vulnerable to capture by a third party – one with an exploitative plan. The question becomes: can Marcus and Sam take control of the sub before it’s too late?
Kylie works with Admiral Shepard trying to bring down the president using evidence of what really happened in Pakistan. This affords Marcus the opportunity to surrender the Colorado, if all goes according to plan. Ernie Hudson guest stars as Speaker of the House Conrad Buell. He meets with a small group of Washington heavyweights to discuss an unthinkable development, while Kylie’s video information helps persuade him to participate in a highly risky and treasonous maneuver.
As a coup is hatched in Washington, D.C., Marcus (Andre Braugher) accepts the Chinese government’s offer of assistance, placing the United States at odds with the rival superpower and the USS Colorado on a collision course with a Navy destroyer.
While lost in the wastelands of Mobius, Sonic, Manic and Sonia stumble upon an oasis called Lake Valley Resort.
Marcus (Andre Braugher) must consider launching a nuclear missile on Indian troops moving into Pakistan in order to stop the slaughter of his crew’s family members as they approach the island.
“Big Chicken Dinner” – Marcus brings the members of the Colorado and the islanders all together to celebrate their two cultures -- a feast in the spirit of Thanksgiving. But the good times suddenly turn bad the next morning when an essential crew member is accused of a serious crime. Grace handles the man's defense and she's tasked with finding out the truth.
As Marcus (Andre Braugher) and Sam (Scott Speedman) hunt for the traitor in their ranks who stole their nuclear launch key, Prosser (Robert Patrick) disobeys orders and starts a small war he can't control. Meanwhile Grace and James must work together to defuse a dangerous situation, while back in D.C. Christine is indicted as Sam's co-conspirator.
A commando raid that contaminates the island’s drinking water sends Marcus (Andre Braugher) and a skeleton crew out to sea to protect the sub, while Sam (Scott Speedman) struggles with drug-induced hallucinations as he tries to fend off the attack.
As Marcus (Andre Braugher) and Sam (Scott Speedman) negotiate with the Secretary of Defense, Grace (Daisy Betts) leads the Colorado on a risky mission to repair the island’s damaged sonar defenses.
As Marcus (Andre Braugher) considers letting frightened crewmembers leave the island, he is faced with the government’s clandestine efforts to spark a mutiny. Meanwhile, Sophie (Camille de Pazzis) looks to keep Serrat (Aahr Ngaujah) in the dark about the island’s potential mineral wealth.
As Marcus (Andre Braugher) looks to control the Colorado’s restive crew, he agrees to run the blockade in order to gain the release of three sailors who are being held by the island’s corrupt mayor. Meanwhile, Kylie (Autumn Reeser) runs up against an unexpected foe in her search for the truth about the attack.
After Marcus (Andre Braugher) employs an experimental device to elude U.S. warships, a commando team attack sends Sam (Scott Speedman) and Grace (Daisy Betts) into the jungle to defend the island. Meanwhile, Kylie (Autumn Reeser) looks for the source of the attack on the U.S.S. Colorado.
After questioning orders to fire nuclear missiles into Pakistan, Captain Marcus Chaplin (Andre Braugher) and the crew of the nuclear sub USS Colorado are deemed traitors by their own country. Forced to take refuge on an exotic Pacific island, they must fight to clear their names so that they can return home.
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