Michael Scofield, a structural engineer, attempts to rob a bank in order to get incarcerated at Fox River State Penitentiary, where his brother Lincoln Burrows, accused of murdering the Vice President's brother, is scheduled to be executed. At Fox River, Michael approaches a number of inmates, all of whom play an important role in his plan to free his brother from the inside. Meanwhile, agents Kellerman and Hale are determined to make sure the execution goes through as planned. Lincoln's son LJ gets into trouble.

Michael seeks help of his fellow prison inhabitants to execute his escape plans.

When Michael reveals his escape plan to Sucre, Sucre chooses to be no part of it, and requests a cell transfer. Michael gets a new cellmate called Haywire.

Veronica keeps uncovering new information regarding Lincoln's case and decides she wants to work on the case full-time. When no one wants to help her on the case, Nick Savrinn (an attorney) offers his assistance and the two of them visit Lincoln.

Kellerman and Hale blackmail Warden Pope. Michael finds out he might get out earlier than anticipated. Veronica becomes uncertain of her allies.

Michael creates a lockdown by sabotaging the air conditioning in order to execute his breakout plan properly, and unintentionally causes a riot that gets Sara into huge trouble. Meanwhile, an ex-con is blackmailed into seeing to that Lincoln is killed.

While the riot intensifies, Abruzzi and Sucre join forces. Michael must decide whether or not to save the life of Dr. Tancredi.

Michael finds out a storeroom fundamental to his escape plans has been converted into a break room. Veronica and Nick are being threatened.

Abruzzi's demotion in the prison hierachy puts the entire escape plan at risk. Michael finds himself in the uneviable position of trying to protect T-Bag's new "fish" and facing the threat of T-Bag exposing the plan to the guards. The inmates dig themselves into a hole.

Michael is forced to give up Fibonacci's location to Philly Falzone, and Kellerman and Hale get a little unwanted help to track down LJ who has gone missing. Veronica and Nick uncover evidence against the man Lincoln was convicted of murdering.

The escapees and Dr. Tancredi are shocked when they learn the identity of Michael's visitor, who brings with her a very important piece of the escape plan.

Michael sees proof his plan is working, so he begins to overcome the last obstacle. As the escape draws near, the group tries to reduce its number by one and targets T-Bag.

With Lincoln's execution scheduled for the following day, Veronica comes out of hiding to contact him and gains an ally. Kellerman makes the ultimate sacrifice to preserve the conspiracy. Michael looks for a way to get Lincoln out of solitary confinement in time for the escape that evening. The inmates risk everything as they attempt their escape.

Veronica and Nick request a judge to postpone Lincoln's execution. A C.O. becomes suspicious about a broken door.

As Lincoln is about to be executed, he briefly sees his father in the viewing room. A phone call from judge Kessler delays the execution. After reviewing the newly surfaced evidence, the judge orders the exhumation of Steadman's body.

Michael creates a new, more dangerous, break-out plan, involving going through the prison yard. An accident puts Michael's new plan in danger.

Flashbacks shed light on the past actions that led to the incarceration of Lincoln, Sucre, T-Bag and C-Note. Basis of Michael's ingenious break-out plan are revealed. Dr. Tancredi memorizes how she ended up in Fox River State Penitentiary.

Lincoln is worried about Michael's sanity while Michael has trouble remembering some parts of the prison schematics. Sucre has to conceal the hole in the guard's break room. Warden Pope transfers Michael to solitary after he declines his request.

In an effort to recreate the missing piece of the tattoo, Michael gets transferred to the psych ward, seeking the help of Haywire. T-Bag and C-Note have to join forces.

Michael must get the key to the infirmary and enlist the help of an old face, while Lincoln learns the identity of his kidnapper and another inmate learns of the escape.

Westmoreland wants Michael to speed up the planned escape, and gets Bellick one step closer to unraveling it. Michael has to decide whether to involve Sara in the breakout plan. Tweener's devotion is put to a test. Veronica finds out that her ally unexpectedly has a connection to an inmate serving time at Fox River.

Everyone's ready to make their escapes across the high wire. Veronica and Nick realize they may be in over their heads. And Agent Kellerman helps Vice President Reynolds calm down before her debate.

As the escape is in progress, Warden Pope and Captain Bellick begin a search to detain the escapees. Michael and co. have to reach the aircraft fast as the police is hot on their heels. Veronica discovers a major piece of evidence that could prove Lincoln's innocence. The Vice President is worried about losing her authority.

As eight hours has passed since the escape, Michael, Lincoln, Sucre, C-Note and Abruzzi attempt to evade their seekers. Bellick is forced to relinquish the command of the search party to FBI Special Agent Alexander Mahone whose ingenious approach makes Michael's life as a fugitive harder. As a result from her overdose, Dr. Tancredi is in critical condition. A short-handed T-Bag faces the ultimate challenge.

Mahone tries to lure the escapees by targeting an imprisoned LJ. Michael and Lincoln come up with a plan to free LJ from jail. Sucre, Abruzzi and C-Note have a plan of their own, but only to break free of their pursuers.Meanwhile, Bellick and Warden Pope feel the heat following their unsuccessful attempts to capture the escapees.Tweener infiltrates a bunch of college students on their way to spring break.

Michael and a wounded Lincoln try to outmaneuver Mahone, who is hot on their trail. Sara gets a surprise visit to her bedside.Following his suspension, Bellick recruits a resolute partner to aid in his quest to get the escapees behind the bars.Sucre and C-Note head out for their family reunions-regardless of being observed by the authorities.

Bellick, now teamed up with Michael, Lincoln and Nika, sets out to find the money stolen by Westmoreland during the 1971 skyjacking. Kellerman targets Sara, who receives a long-awaited phone call. T-Bag gets a ride from an unsuspecting family. Abruzzi resumes the search for Fibonacci to settle the scores once and for all.

Michael and Lincoln are eager to locate the Double K ranch where Westmoreland hid his millions. Sucre goes to Las Vegas to prevent Maricruz from marrying his cousin Hector. C-Note gets on a train. Mahone is given an important package.

Mahone takes an interest in the story of DB Cooper.In their quest to find Westmoreland's treasure, Michael and Lincoln travel house-to-house in Utah. Haywire's journey outside the prison walls continues. Sucre bumps into an acquaintance.

Michael, Sucre, T-Bag and C-Note claim the hidden treasure.An anxious Lincoln risks everything to get to LJ. LJ grows wary about the easy getaway. Kellerman rethinks where his loyalties lie after Sara gets to The Company's hit list. Mahone results to deadly force to get the truth out of Tweener.

In his efforts to try to get hold of all of the money Sucre runs into some unexpected difficulties. And Captain Bellick and his partner have not given up on finding their old inmates.

In an effort to learn more about his pursuer Michael cozies up to Mahone's wife. L.J. and Lincoln have a bumpy road-trip. T-Bag receives a surprise, and C-Note's wife must choose between her daughter and husband.

As Michael reunites with Sara, Mahone and Kellerman strive to make sure they stay apart.On the road with LJ, Lincoln meets his father. Sucre tries to contact Maricruz. T-Bag has a reunion of his own.

As Lincoln tries to reunite with Michael, he has to say goodbye to another loved one. Michael attempts to obtain a getaway plane. T-Bag gets revenge. Sara and Kellerman face-off.

With Mahone on their trail, Michael, Lincoln, their father, and Sucre make a run for the getaway plane. Michael's reunion with his father sheds light on his difficult childhood.The women in Bellick and Kellerman's lives coerce their men to confess their sins.A medical emergency forces C-Note to risk it all.

Bellick is anything but happy about his sudden homecoming-to Fox River.Elsewhere, Michael and Lincoln might face a homecoming of their own. Mahone and Kellerman use everything they got to make certain that Michael and Lincoln do not get through their road trip alive.Sucre's getaway plane encounters some difficulties. T-Bag closes on Mrs. Hollander.

Bellick gets a taste of the medicine he gave out when he was the Captain and Agent Mahone's ex-wife makes another appearance.

In Mexico, Sucre gets a car but gets in trouble by the police. Bellick has more trouble as the new inmate as prisoners who suffered with him want revenge.

C-Note gets into a tricky situation when a robber holds up the diner he is in and demands everyone go into the storage room until the police arrive. Michael, Lincoln and Kellerman get closer to revealing the conspiracy with the help of Sarah. Mahone finds a new ally in Bellick.

Michael and Sara request Henry Pope's help to retrieve the information that will topple The Company.Mahone pins down an escapee. Sucre discovers a new threat while hitchhiking to reunite with Maricruz. T-Bag brings the Hollander family to his home.

T-Bag digs deep and finds his 'nice-side' with the help of a psychiatrist. Michael, Lincoln, and Sarah get their hands on evidence needed to bring down The Company, while Kellerman is close to finding the President.

An unlikely alliance forms between Bellick and Sucre while Michael is determined to face the president. T-Bag gets into some trouble when he loses his luggage and C-Note faces major consequences after some of his actions.

Sara sacrifices herself for the safety of Michael so the brothers can get on with their final plan to attain freedom, but their plan gets 'shipwrecked'. Meanwhile, Bellick blackmails Sucre to partner up as T-Bag's streak of murder continues to the south of the border.

The day has finally come for Sara's trial while critical information that will exonerate her is being debunked. Meanwhile, Michael is determined to get his hands on the 5 million and to stop T-Bag's reign of terror. Bellick is also money hungry and will do whatever it takes to hunt down T-Bag. Kellerman decides his fate while Lincoln and Mahone square off.

Michael tries to save his brother and himself from the unstoppable Mahone. Kellerman's testimony at Sarah's trial proves different from what was expected, could this be the end for Sarah? Sucre puts everything on the line to save his Maricruz. Just like old times, T-Bag and Bellick are at it again but this time there will be a winner.