Visible crew/equipment: After the bus driver has given Lincoln's description to the police, it cuts to Lincoln driving a car. The camera moves closely in to the car and you can see both the camera and a couple of crew members reflected in the window. (00:13:50)
Visible crew/equipment: S03-E12: When Lincoln gets on the boat, it cuts to a shot from behind him, and the camera's shadow is visible on his back. (00:27:10)
Audio problem: When Whistler steals the truck at the end, he states "Hey my truck" however the audio is a clear overdub. (00:38:15)
Continuity mistake: When shooting at the car, Link hits the driver's side window. This bullet hole then moves between shots. (00:32:20)
Revealing mistake: When they get on the boat you can see the outline of the wetsuit under Michael's shirt. (00:27:20)
Continuity mistake: At the Buoy, McGrady's hair is constantly changing between shots. (00:21:40)
Revealing mistake: When running to the stash on the beach you can see tracks from previous takes. (00:15:30)
Continuity mistake: When Bellick is being choked, the guard's arm is constantly changing position around his neck. In some shots, Bellick's neck is in the guard's elbow joint, and in others it's halfway down the guard's forearm. (00:07:45)
Continuity mistake: We see Link driving with a blue short sleeved shirt on. When he arrives at his destination he's wearing a long sleeved grey undershirt. (00:14:20)
Answer: Don Self actually worked with Whistler before he died. And Whistler with the bird book actually knew where Scylla was.