Continuity mistake: Millhouse is in the classroom at the beginning when Principal Skinner says that superintendent Chalmers is coming for a surprise inspection, but when they show Nelson he is getting crud put down his shirt. How could he be at two places at once?
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Continuity mistake: Homer is interrupted from praying by a nurse who comes into his room and says, "Ssh." However, when she says this, the door is closed, and it is only in the next shot where the door is open immediately and she is pointing to the NO PRAYING sign.
Continuity mistake: When the flashback of Ned and Todd Flanders singing in the Simpsons' doorway, Homer says he could use a TV tray. Then it goes back to the present time and Homer picks up a beer from the TV tray which is next to the couch. The TV tray was never there at any other point in the show.
Other mistake: In the beginning of the episode when Chief Wiggum orders a battering ram through the front door of a house, Reverend Lovejoy opens the door and questions what they are doing. Chief Wiggum says "isn't this 742 Evergreen Terrace?" to which Lovejoy replies that it's the house next door. In the next shot, you see Snake pulling out of the garage and speeding away. Everybody knows that 742 Evergreen Terrace is, in fact, the Simpson residence.