Seven years later, thanks to an information provided by T-Bag, Lincoln and Sara discover that Michael is still alive in a Yemen prison, so they develop a plan to get him out.
Clues surface that suggest a previously thought-to-be-dead Michael may be alive. Lincoln and Sara, Michael’s wife until he was presumed dead, reunite to engineer the series’ biggest escape ever, as three of Fox River State Penitentiary’s most notorious escapees, Sucre, T-Bag and C-Note, are pulled back into the action.
As Lincoln and C-Note search for the “Sheik of Light,” Michael and his cellmate, Whip, attempt an escape from Ogygia. Meanwhile, Sara’s investigation into Michael’s reappearance leads her to the state department and an uneasy reunion with Paul Kellerman.
T-Bag ambushes Sara and warns her that two of Poseidon’s henchmen, Van Gogh and A&W, may be following her. Lincoln attempts to retrieve his confiscated passport to escape Yemen and Michael plans his next move
Michael, Whip and Ja make their last attempt to break from Ogygia, but must make a deal with the devil to do so. Lincoln races against the clock to help with the escape, as T-Bag meets with Kellerman to gather more info on Michael's resurrection.
Lincoln becomes frustrated as he tries to understand what really happened to Michael. C-Note has a new escape plan, but fears it will not be executed quickly enough, as Cyclops is trailing closely behind. Meanwhile, Sara struggles with the idea that Michael may be alive.
As Michael, Lincoln and the remaining Ogygia gang try to escape Yemen, they find themselves racing though the desert from a vengeful Cyclops. Meanwhile, A&W and Van Gogh question their roles as their pursuit of the escapees leads them to...Graceland.
Sara becomes fearful of her family's safety when she discovers the real reason that Michael faked his own death. In the meantime, Michael and Lincoln continue to try find a way home with the help of Sucre, and the real identity of Poseidon is revealed.
When Sara and her son are threatened, Michael and Lincoln recruit the help of Sheba and C-Note to catch Poseidon; Whip sets out on a separate mission; T-Bag reveals a secret.