Continuity mistake: When Bart is called up to give his oral book report keep your eye on Bart's book, Treasure Island, and the direction of its binding. The book's binding should be to the left of The Front cover, which has the picture of a pirate wearing a black hat, but the binding changes to the right side (note the cover picture/title) of the cover at times, and when he mentions the publisher the book also changes how it's held by Bart. (00:02:10)
Continuity mistake: The door to Mrs. Krabappel's classroom has a window, but when Bart fakes being sick then walks out of the class (we see the desks as the door closes), the door's window has vanished, and the doorknob has switched sides as well. Additionally, earlier, when Bart deliberately falls off his chair in class, note that one of the bars on the back of his chair has gone missing. (00:07:35)
Other mistake: When The Town is singing the Christmas carol you can see Sideshow Bob, who was arrested and jailed in series 1. We know he hasn't been released, as that's a plot point over the show. (00:18:10)
Continuity mistake: When Bart hands Ms.Krabbappel his final test, there are some shots going back and forth between their faces. During the first shot looking at Ms.Krabbappel, you can see a window behind her, and outside the window, there is no snow, even though there was a whole lot of it yesterday. During the next shot, the snow IS there. As the camera goes back and forth, the snow disappears and reappears.
Continuity mistake: When Bart fails the test despite having actually studied, we see the two red "X" marks in the center row of the multiple choice questions, but after Mrs. Krabappel passes Bart because he applied practical knowledge, when Homer hangs the test up on the fridge those two "X" marks in the center have vanished.
Continuity mistake: Bart's bedroom is on the opposite side of the stairs, with his window facing out to the backyard, but after his prayer his bedroom window is facing The Front of the house. Additionally, the style of his window changes as well, going from two horizontal sliding panes with no muntins, to a vertical sliding window with two muntins when Marge pulls the curtain back, then to a having only one muntin when Bart opens his window.