In the last episode of the first season, when Mike (Wentworth Miller) and Lincoln (Dominic Purcell) ran to the place where the plane sent by the gangster Abruzzi was parked, the pilot left without waiting for them due to safety issues. The escaped prisoners could only sigh at the sky, so they each started their escape life. FBI veteran agent Mahone, who was chasing fugitives, became the head of the capture team under the authorization of the vice president, and he decided to defeat them one by one. On the other hand, Sarah's father was killed because of the Lincoln case. She began to believe Mike and got clues from her father's relics; when Kellerman, the vice president's subordinate, went to capture Lincoln's son LJ and prepared to take him hostage, he killed LJ's family, but LJ escaped unexpectedly; the lawyer who had been helping Lincoln got more and more clues... All the conspiracies seemed to be slowly unveiled.