Continuity mistake: As the train is approaching the police road block, we get a shot behind the police cars right before the train hits them. At that point all the policemen are gone. In the next shot, the policemen are back by the police cars. (00:28:30)
Other mistake: After Michael, Lincoln, Sara, and Kellerman jump the train, the scene of the police in pursuit pulling into a clearing is the same from the 'Dead Fall' episode - just a different shot. (00:35:05)
Revealing mistake: When Haywire jumps off the tower, it's obviously a stuntman falling down. And when you see his fall from above, he is falling towards a big drain. But when the scene cuts to the part when he has landed, he's lying on concrete. (00:42:15)
Factual error: When Mahone is at MSP International he gets the call about C-Note being in the diner in Benson, MN and says to "fax Fanklin's mugshot to every hospital in southeastern Minnesota." Benson is in West-Central Minnesota, almost 3 hours from Minneapolis, definitely not southeastern MN. (00:03:50)
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.
Answer: Don Self actually worked with Whistler before he died. And Whistler with the bird book actually knew where Scylla was.