Scofield forces John Abruzzi to recruit him in the Prison Industries (PI) by proving to know the location of Fibonacci, the only witness against Abruzzi. Scofield also meets Charles Westmoreland, who is believed to be D. Sara Tancredi, who injects him insulin because of his apparent diabetes, and Benjamin Miles 'C-Note' Franklin, who accepts to get anti-insulin drugs for Scofield. Scofield accepts warden Pope's offer to finish making a model of the Taj Mahal. Scofield reunites with Burrows, and reveals that his mysterious body tattoo is the blueprint of the prison. Burrows, Lincoln's son, is arrested for drug dealing. Secret Service is revealed to be part of the conspiracy against Lincoln. Veronica Donovan, a lawyer and Lincoln's former girlfriend, begins to believe his innocence. Sucre goes to solitary confinement for keeping illegal materials. For his plan, Scofield needs an Allen bolt, which exists in Bagwell's bench. Bagwell refuses to give him the bolt after Scofield denies his sexual offer. Tancredi doubts Scofield's diabetes and schedules a test. A race fight starts between the black and white prisoners. Scofield obtains the bolt and uses it to unscrew his cell's toilet. Bagwell thinks that Scofield killed the former's male love.

Franklin gives Scofield the drug, resulting in the latter's positive test and his regular access to the infirmary. Falzone, Abruzzi's accomplice, pushes him to find Fibonacci. Bellick searches Scofield's cell, but he doesn't find anything. Burrows tells Donovan that he didn't pull the trigger, as shown in the tape, and the man was already dead. Donovan finds a witness named Leticia Barris.

Secret Service agent Paul Kellerman reports Donovan's activities to a woman in Montana.

Since Sucre can't call his fiancé, Delgado, from the solitary, she gets upset and goes out with Sucre's cousin Hector. Scofield is abducted by Abruzzi's men and tortured for Fibonacci. Lincoln vows to make Abruzzi pay, but Scofield reminds him that Abruzzi is needed. Sucre is released from solitary and Scofield tests the former's loyalty before revealing his plan. Sucre passes the test, but he decides to change his cell and stay out of trouble as he will be released soon. Abruzzi realizes that he must befriend Scofield in order to find Fibonacci. Abruzzi tries to reconcile with Scofield by having his men beat up Bagwell and thus the latter going to the solitary. Scofield tells Abruzzi about his plan and he agrees to cooperate.

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