Continuity: When the dome is being lowered over Springfield, The amount of choppers carrying the dome changes depending on the shot.

Audio problem: When Homer gets stuck in the sink hole, He says "Uh-Oh" but his mouth doesn't match what he says.

Continuity: When Homer cuts the ropes securing the Pig Crap Silo to the car, he marks the car. Next shot the marks have gone.

Continuity: At the start, people in the church switch places instantly. Most noticeable is Chief Wiggum who moves from behind Ned on the left, to a few rows behind Marge on the right.

Continuity: When Bart is talking to Ned about going fishing with Homer, he has a sling-shot that disappears throughout the scene.

Continuity: The one eye by the back leg of the squirrel keeps disappearing and reappearing depending on the shot.

Continuity: When Homer is running across the roof there is a section of tiles that he doesn't pull off. When he falls they have disappeared.

Continuity: When Homer is dressed as General Marriot Suites he's wearing white gloves but after he punches the guard the gloves have vanished.

Other: On the close-up shot of the "Doomsday Clock" with "Sponsored by TIMEX" underneath, the clock is counting up from 1:33 to 1:34, rather than down.

Continuity: When Homer starts to replace the shingles on the roof there is a box of tiles, however, when Bart climbs the antenna, they have disappeared.

Continuity: When coming down the dome the height of Homer on the dome changes between shots.

Continuity: Homer puts superglue on his hands and gets his hand stuck to his groin. He then uses his second hand with superglue on to get his hand off but that hand dosen't get stuck.

Continuity: When the family move to Alaska, the door to their cabin opens to the left (looking at it from the inside) when Homer escapes from Bart and Lisa's "avalanche". But later in the film it opens to the right (from the inside).

Continuity: In the scene where everyone is climbing the rope to get on the top of the dome, Homer should already be at the top, but when the camera points to the top of the dome, he does not appear there. The next scene shows him back at the top of the dome again.

Continuity: In a scene Milhouse comes out of a house there is nothing in the yard, a long time passes, nearly ten minutes, Nelson comes over and there is a large rock in the yard.

Continuity: Green Day's teleprompters disappear from the stage depending on the shot. Most noticeable when sinking.

Continuity: Eddie and Lou are at the lake making notes about the Pig Crap Silo. The next shot is of the town approaching the Simpson house and Eddie and Lou can be seen in the mob.

Continuity: When Homer is collecting firewood his footsteps start randomly in the midde of nowhere, with no tracks to the trees he came from.

Continuity: A wood appears outside the Simpsons' fence when the dome has been lowered.

Continuity: Willies hair changes from red to brown throughout the film.