Factual error: Episode: Bad Blood. When the airport security guard stops to give Sucre a ride, his car has Sinaloa plates on it. Since he works in Ixtapa/Zihuatinejo, it should have Guerrero plates on it. Sinaloa is several hundred miles away.
Revealing mistake: When C-Note is hanging at the start, you can see he has some protection on under his jumpsuit as his build is a lot more stocky than his actual build. (00:01:30)
Continuity mistake: When President Reynolds steps out of her limo, one of the secret service closes the door. We then see the president through a sniper's sight and the door is open. (00:12:20)
Continuity mistake: When Sucre is getting ready to leave he puts his hand on Maricruz's chin. In the first shot his thumb is under her chin, in the second shot it's on her cheek. (00:17:30)
Continuity mistake: When Michael is talking to the president, the dried blood on his face is constantly disappearing and reappearing. (00:31:00)
Continuity mistake: When Agent Kim gets into the limo and is explaining how the president needs taking care of, the other man closes his folder twice. (00:36:15)
Continuity mistake: At the start, Mahone is on the phone while in the taxi, during this scene his grip on his phone keeps changing. (00:05:30)
Answer: Don Self actually worked with Whistler before he died. And Whistler with the bird book actually knew where Scylla was.