The Message - S2-E15
Continuity mistake: The amount of chicken on the bone that Sucre takes off his plate increases between shots. (00:25:20)

The Message - S2-E15
Continuity mistake: When we see the trio in the car after Mahone has worked out where they are headed, Paul's hands are raised or lowered depending on the shot. (00:21:10)

The Message - S2-E15
Continuity mistake: The way Haywire holds his map changes between shots. (00:16:35)

Continuity mistake: When the van comes to a stop in the tunnel, it is out of alignment with the rest of the convoy. Camera changes and the van has now shifted sideways, back into alignment. (00:26:25)

Disconnect - S2-E12
Continuity mistake: Brad is arrested for Roy's murder and has his head on the desk. Camera cuts and it's no longer on the desk. (00:38:20)

Continuity mistake: When Sarah is being tortured at the end, her hair is constantly changing position. (00:40:00)

Continuity mistake: In the hardware store, the box with the vials in keeps changing from open to closed. (00:01:50)

Rendezvous - S2-E10
Continuity mistake: Near the end, Sarah is bandaging Michael's arm. In the first shot, his arm is raised, in the second it's lowered. (00:38:00)

Rendezvous - S2-E10
Continuity mistake: Sarah closes the mailbox at the Rendezvous and keeps her hand on the box. Camera changes and she has a hand on her hair. (00:13:30)