In the beginning of the episode, when Michael is about to go through the hole in the wall, when he unscrews the toilet and moves it, the bricks that were knocked out, were still there.
When Michael is on his way to save Sara, as he is climbing up through the rails, one of the scenes is clearly from the first time he breaks through the wall. You can see his blue shirt as he climbs up, but he isn't wearing his blue shirt.
When T-Bag returns from the infirmary, the left pocket of his pants is turned inside out. In the next shot, the pocket is tucked away properly.
When the riot starts you see the Correction Officer Mack Andrews behind Geary.Yet the next scene you see him getting up (after his phone call to Bellick) from behind the door.
In the beginning when Michael is seen going through the hole in the wall first he has a short sleeve shirt, then he has a long sleeve, then back to a short sleeve.
Michael projects a drawing on sandwich paper at a wall by putting it in front of a simple lamp; this is not possible. To obtain a sharp projection, you need to have an optical system in front of the image, like e.g. in a slide projector.
According to later episodes, the prisoners are supposed to be hand-cuffed to the beds in Sick Bay and in the Infirmary, but they aren't during the riot. However, it's safe to assume that rule was implemented as a result of the events of this episode.
In the infirmary when Dr. Tancredi is seeing each patient she asks "Kwame" what brings him in to see her today. Kwame is the actors real name. He is listed as Stroker on the end credits.