The major storyline for the fourth season concerns a team recruited by Homeland Security agent Don Self (Michael Rapaport) to obtain Scylla. Although the team initially believes it to be the Company's "black book", it is later revealed to contain information on an advanced renewable power cell. Over the course of the first half of the season, the team obtain cards to access Scylla, and break into Company headquarters to steal it. In the first half, Sara is discovered to be alive, Bellick is killed, and Self is revealed to be a double agent and is planning to sell Scylla to the highest bidder. Reluctantly, Lincoln decides to join the Company to get it back, while Michael suffers from a hypothalamic hamartoma. He is treated and operated on by the Company. He later learns that his mother, Christina is still alive and was an agent of the Company, who is revealed to acquire Scylla to sell to the highest bidder. Eventually, the series ends in Miami, where Scylla is recovered by Michael and the team, the General and the Company are taken down, and Christina is killed. In Prison Break: The Final Break, a story is told explaining what happened following the events of the last episode (before the four-year flash-forward) and the strange scar on Sara's shoulder. This story involves the incarceration of Sara in Miami-Dade county penitentiary due to budgetary cutbacks; there are cots installed there acting as the county jail. With the General and T-Bag in the adjacent Men's facility, the General wants Sara dead and offers a $100,000 bounty. Largely echoing season one, Sara is involved in common prison fare before Michael hears of the bounty, and plans are devised for her escape. And in the end, Michael sacrifices himself for his brother, wife and child. It was also his choice to do, due to his disease, a brain tumor.

Episode Name: The Life We've Chosen
Amanda holds Alex hostage and tells Nikita she will release Alex in exchange for Ari. Michael assigns Nikita and Sean to handle the exchange of prisoners, but Ryan adds Owen to the team at the last minute, which makes Michael suspicious. While in captivity, Alex befriends a fellow prisoner named Larissa and vows to break them both out of the jail, which ultimately conflicts with Nikita’s plan, forcing Alex to choose between Nikita and her promise to Larissa.

Episode Name: The Life We've Chosen
Amanda holds Alex hostage and tells Nikita she will release Alex in exchange for Ari. Michael assigns Nikita and Sean to handle the exchange of prisoners, but Ryan adds Owen to the team at the last minute, which makes Michael suspicious. While in captivity, Alex befriends a fellow prisoner named Larissa and vows to break them both out of the jail, which ultimately conflicts with Nikita’s plan, forcing Alex to choose between Nikita and her promise to Larissa.

Episode Name: Ghosts
Raylan has a last, lethal showdown with the Detroit mob, while Boyd and Ava try to keep an incriminating secret dead and buried.

Part 9: Passion
The crucifixion and the Resurrection of Jesus through Ascension, Pentecost and Revelation. During this last episode, Peter denies Jesus and Judas hangs himself; the crowd clamours for Jesus’ death; Jesus is crucified, but when Mary Magdalene goes to his tomb, a figure walks towards her – he is back; Jesus commissions the disciples to “go and preach to all creation,” but their godly mission meets with hatred and even death.

Part 9: Passion
The crucifixion and the Resurrection of Jesus through Ascension, Pentecost and Revelation. During this last episode, Peter denies Jesus and Judas hangs himself; the crowd clamours for Jesus’ death; Jesus is crucified, but when Mary Magdalene goes to his tomb, a figure walks towards her – he is back; Jesus commissions the disciples to “go and preach to all creation,” but their godly mission meets with hatred and even death.

Episode Name: Pay It Forward
When a time capsule in a small Colorado town is opened twenty-five years later and contains a gruesome discovery, the BAU investigates the crime and find a possible link to the death of a local police officer.

Episode Name: Why Dont We Get Drunk?
Lavon’s big plans of making BlueBell a Spring Break destination hits a roadblock when the competing town tries to lure the partiers away. With the help of Ruby Jeffries, Lavon creates a competition that is bound to attract some attention. Eager to join in some much-deserved fun, Zoe agrees to give partying a try with Jonah (Travis Van Winkle), but seeing them together makes George jealous. Wade and Lemon decide to compete in Lavon’s contest in order to win the grand prize to buy the Rammer Jammer, which they have learned is for sale. Meanwhile, Brick has been acting odd and when everyone begins to notice they force him to seek treatment.

Episode Name: Deeez Nups
The gang spends the weekend at a casino resort for a wedding and crosses paths with a local crime boss whose presence jeopardizes the impending nuptials.

Episode Name: The Fast and the Furriest
When Castle and Beckett find giant footprints at the site of a vicious murder, the team is forced to confront the unlikely theory that Bigfoot is the killer. But as they trek into the world of primate research, big game hunting and mythological creatures, they realize that finding the man (or beast) responsible may put them on the endangered species list.

Episode Name: The Fast and the Furriest
When Castle and Beckett find giant footprints at the site of a vicious murder, the team is forced to confront the unlikely theory that Bigfoot is the killer. But as they trek into the world of primate research, big game hunting and mythological creatures, they realize that finding the man (or beast) responsible may put them on the endangered species list.

Episode Name: The Fast and the Furriest
When Castle and Beckett find giant footprints at the site of a vicious murder, the team is forced to confront the unlikely theory that Bigfoot is the killer. But as they trek into the world of primate research, big game hunting and mythological creatures, they realize that finding the man (or beast) responsible may put them on the endangered species list.

Episode Name: A Portrait of the Artist As a Young Call Girl
When Jordan asks Naomi to plan a party for Author X, Annie is forced to reveal herself. Dixon finds out Michaela has feelings for Navid. Silver is worried that Adrianna isnt happy with her dating Mark.

Episode Name: A Portrait of the Artist As a Young Call Girl
When Jordan asks Naomi to plan a party for Author X, Annie is forced to reveal herself. Dixon finds out Michaela has feelings for Navid. Silver is worried that Adrianna isnt happy with her dating Mark.

Episode Name: A Portrait of the Artist As a Young Call Girl
When Jordan asks Naomi to plan a party for Author X, Annie is forced to reveal herself. Dixon finds out Michaela has feelings for Navid. Silver is worried that Adrianna isnt happy with her dating Mark.

Episode Name: A Portrait of the Artist As a Young Call Girl
When Jordan asks Naomi to plan a party for Author X, Annie is forced to reveal herself. Dixon finds out Michaela has feelings for Navid. Silver is worried that Adrianna isnt happy with her dating Mark.

Episode Name: A Portrait of the Artist As a Young Call Girl
When Jordan asks Naomi to plan a party for Author X, Annie is forced to reveal herself. Dixon finds out Michaela has feelings for Navid. Silver is worried that Adrianna isnt happy with her dating Mark.

Episode Name: This Kiss
When the town decides to put on a performance of Shakespeares most iconic scenes, George and Zoe refuse to play Romeo and Juliet, but eventually agree just to prove to everyone that they are over each other. Lemon and Wade are excited about taking over the reigns at the Rammer Jammer, but things come to a halt when they lose all the staff two days before opening. Meanwhile, Brick decides to offer a week of free counseling to everyone in BlueBell and winds up helping the two most unlikely people, but in his effort to help others he learns a secret he has been keeping from himself.

Episode Name: This Kiss
When the town decides to put on a performance of Shakespeares most iconic scenes, George and Zoe refuse to play Romeo and Juliet, but eventually agree just to prove to everyone that they are over each other. Lemon and Wade are excited about taking over the reigns at the Rammer Jammer, but things come to a halt when they lose all the staff two days before opening. Meanwhile, Brick decides to offer a week of free counseling to everyone in BlueBell and winds up helping the two most unlikely people, but in his effort to help others he learns a secret he has been keeping from himself.