Continuity mistake: In the shot where Scofield and Whistler are clinging to the wire from the helicopter, one of the bad guys gets shot and falls out of the helicopter. He falls past the wire, but they're not hanging off it. (00:38:35)
Fire/Water - S3-E2
Continuity mistake: When Scofield has water poured in to his glass the water level isn't even a quarter full, however, when it cuts back the glass is half full. (00:02:00)
Under & Out - S3-E11
Continuity mistake: When T-Bag and Lechero are in the tunnel talking about Michael planning something, Lechero has the crowbar level with his face in some shots and lowered in others. (00:14:00)
Continuity mistake: Lechero regains command of the prison and dumps the bodies of the two guys off the ledge. His face goes from being clean to full of sand to clean in three short shots. (00:36:20)
Interference - S3-E5
Continuity mistake: When the guard leaves he is still holding the rifle scope in his left hand but in the next shot Schofield picks up the rifle scope from the floor.
Orientación - S3-E1
Continuity mistake: Lecharo's girl says "who would have thought it, a famous person in Sona." When she does her top buttons itself up. (00:15:25)
Orientación - S3-E1
Continuity mistake: Sammy kills a prisoner at the start. The position of the dead man changes between camera angles. (00:02:35)
Fire/Water - S3-E2
Continuity mistake: Michael's grip on the paper when he first shows Linc changes between shots. (00:15:20)
Continuity mistake: When Mahone is in the bar at the start, his hand is constantly changing from up at his mouth to down by his side. (00:09:50)
Continuity mistake: When shooting at the car, Link hits the driver's side window. This bullet hole then moves between shots. (00:32:20)
Continuity mistake: At the Buoy, McGrady's hair is constantly changing between shots. (00:21:40)
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)
Under & Out - S3-E11
Continuity mistake: When Link is dabbing Sofia's burn marks, the dressing changes from his left hand to his right hand instantly. (00:26:10)
Under & Out - S3-E11
Continuity mistake: The truck in no man's land comes to a stop next to the tunnel. Camera changes and now it's a good 4-6ft away. (00:15:10)
Under & Out - S3-E11
Continuity mistake: We see the truck approaching the tunnel in no man's land. In one shot from the truck, it is by a massive puddle. Camera cuts to a wide shot, and the massive puddle has gone. (00:14:50)
Call Waiting - S3-E3
Continuity mistake: When Bellick is talking to Pistachio, Pistachio pulls out the razor and starts to close it. Camera changes and she closes the razor again.
Answer: Don Self actually worked with Whistler before he died. And Whistler with the bird book actually knew where Scylla was.