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: In Season 2: Episode 9-"Unearthed" when Bellick is talking to T-Bag in the house, he pulls up a chair to sit down in front of T-Bag. When he pulls the chair out and starts to sit down, the chair is backwards, but in the next shot it's facing T-Bag. (00:38:10)
Continuity mistake: You can see David with his hands behind his head, but in the next shot he still has his hands beside him, and only later places them behind his head. (00:34:48)
First Down - S2-E4
Continuity mistake: The front licence plate disappears from Link's car as it hits the tree. (00:03:20)
Rendezvous - S2-E10
Continuity mistake: Sarah closes the postbox and walks away with the box remaining closed. When she gets in the car the box is open. (00:13:15)
Rendezvous - S2-E10
Continuity mistake: When Sarah opens the postbox she has the paper in her left hand. When the shot changes it's in her right hand. (00:13:00)
Continuity mistake: The positions of the coolers the clerk falls into changes between shots. Note the colours of them. (00:02:40)
First Down - S2-E4
Continuity mistake: When Mahone tells John he is going back to Fox River or the morgue, the position of John's necklace on his fingers changes position between shots. (00:35:00)