
Revealing mistake: When running to the stash on the beach you can see tracks from previous takes. (00:15:30)
Revealing mistake: When they get on the boat you can see the outline of the wetsuit under Michael's shirt. (00:27:20)

Starring: Dominic Purcell, Robert Knepper, Wentworth Miller, Amaury Nolasco

Revealing mistake: When running to the stash on the beach you can see tracks from previous takes. (00:15:30)
Revealing mistake: When they get on the boat you can see the outline of the wetsuit under Michael's shirt. (00:27:20)

And Then There Were 7 - S1-E11
Continuity mistake: When Quinn falls in the well, he falls through and subsequently destroys the well cover. At the end of the episode when the Secret Service boys show up, an undamaged cover is lying next to the well, which Kellerman uses to cover it up. (00:29:30 - 00:38:30)
Michael Scofield: This is going wrong in every possible way. (00:05:10)
Question: How does Don Self know that Miriam should work at Gate when nobody knew about the location of Scylla? Or Whistler wanting to work there?
Answer: Because Miriam was an agent.
But that still doesn't make sense because nobody knew where Scylla was.
He knew that GATE was mentioned in the bird book. He worked with Whistler and had probably discussed GATE with him, so it was clear enough that it was a big part of the plan to get Scylla. Sending an agent to work there in any position would've been a big help for intel, as she could assess the environment and perhaps uncover what Whistler's plan was. He didn't anticipate T-bag's hijacking of the plan, hence why he sent Miriam and not a more combat-trained agent. She was only there for information.
Answer: Don Self actually worked with Whistler before he died. And Whistler with the bird book actually knew where Scylla was.