T-Bag's goatee grew in the few minutes between the time he left Rita's house until Lincoln came in to talk to him in the Company's holding cell.
When Michael is sitting in the chair post operation talking to Sara, when the camera is close up with BARGAIN, the elements in the word are separated by squares, but when the camera cuts away during conversation, the elements on the page are circled.
The doctors begin the surgery by drilling almost straight in the top of Scofield's head, yet afterwards he has a bandage running across the sides of the head leaving exactly the operation wounds exposed.