Air date: 9/1/08

After three weeks of searching, Michael finds Gretchen and Whistler in Los Angeles to avenge Sara's death, where they tell him she escaped and is still alive. He finds her through Bruce Bennett and the two reunite. In Panama, Sucre, Bellick and T-Bag escape from Sona after a riot. T-Bag hitches a ride to the US, though the driver steals his money and leaves him for dead in the Mexican desert. Lincoln is arrested after killing a Company agent. Sucre and Bellick are arrested also, and Mahone is arrested after he finds out that Company agent, Wyatt has murdered his son. The arrested are soon brought together by Homeland Security agent Don Self in an offer to bring down the Company once and for all.

Breaking & Entering

Air date: 9/1/08

Michael and his gang are brought in to retrieve Scylla, a blackbook for the Company. The only way to do this, is to break into the cardholder's home, and download the information from a device made by Roland, a computer geek. They get the information by planting the device on a maid, though she sends the device back to the home, where Michael and the team retrieve the device by creating a diversion. T-Bag manages to return to the US and finds a location from Whistler's bird book, where he finds something concerning Whistler's double life. Wyatt has Gretchen imprisoned. Roland retrieves the information from Scylla, but breaks the news that Scylla is six cards, and they need the other five to get to it.

Shut Down

Air date: 9/8/08

With five more cards than anticipated, Homeland Security shuts down the operation and send the group behind bars again. Michael, Lincoln, Mahone and Sara escape to uncover clues about where the other card holders are, Michael records a meeting with all six cardholders, and with this new development, Self decides to continue the operation. T-Bag uses Whistler's new identity to make a new life for himself. Wyatt captures Bruce Bennett and injects him with truth serum to uncover Sara's whereabouts, before killing him. Lincoln has a change of heart for Mahone after he hears his son has been murdered, and agrees to help find Cameron's killer.

Eagles and Angels

Air date: 9/15/08

The team finds the second cardholder, and attend a police benefit by disguising as police officers to obtain the next card. T-Bag starts working at GATE Corporation and starts reading the information from Whistler's bird book. Meanwhile, Sara hears of Bennett's death, which they believe to be suicide, and is stricken with grief and guilt. She goes to a bar, where one man steals her credit card, alerting Wyatt to her location, and starts following her to find her team to get Scylla.