Continuity mistake: Alexander Mahone reveals his so called past to Tweener and shows pulls out 2 pills from his pen, however next time we see the pills there are 3. (00:12:10 - 00:13:20)
Continuity mistake: Tweener is talking to his lover then has his arms up on his head, then the FBI catch him and tell him to put his hands up. (00:34:36)
Continuity mistake: The Key that falls out of the governor's pocket when Sara is trying to save him is not the same as the one she picks up. (00:24:00 - 00:25:00)
Continuity mistake: When Tweener goes to the house from the girl from Utah he has his hands on his head, then not. (00:34:40)