Continuity mistake: When "Emperor" Moe appears in front of Marge, after she and the kids return, the two cartridge belts swung over Moe's shoulders switch from his left over the right, to his right over the left. (01:04:50)
Continuity mistake: When Barry gets stuck inside for the first time, he hangs onto the drapes. His arm is straight across, but in the shot behind him, his arm is now bent and raised and above his head.
Continuity mistake: During the fight between Raph and Leo, Raph breaks Leo's swords. Later when Raph gives the broken swords to Splinter they are broken much closer to the hilt then before. (00:56:40 - 01:00:25)
Continuity mistake: When Snow White rips off her sleeves she has a tattoo on her right shoulder. Later, when she calls the animals to attack the guards, the tattoo is gone.
Continuity mistake: When Remy and Emile are cooking the mushroom on the roof, notice that the mushroom is skewered on the antenna. When Remy and Emile are hit by lightning and sent careening off the roof, the mushroom is instantly on a stick in Remy's hand, instead of the antenna. It could've been sent flying by the lightning bolt, but even if it was, there was no stick in the previous shot for it to have ended up on. (00:07:50)
Continuity mistake: Right before the final race, there is a wide shot of all the surfers. In that shot, Cody has his Big Z necklace that he chucked earlier.
Continuity mistake: When Ben and Gwen are fighting off aliens on Incarcecon, right after the tetramand destroys the hoverboard, the Omnitrix is missing from Ben's wrist.
Continuity mistake: During the scene where Lewis is first on the roof-top, and Mildred comes up to speak with him, the box he is sitting next to is plain wood on one side, and tallied on the other. When there is a close-up of Lewis' legs and the torn paper, when he's ripping the pages out of his book, the box has stencilled writing that is upside down. (00:06:25 - 00:18:30)
Continuity mistake: While discussing her bodily changes during adolescence, Marji says her left foot became enormous, but the scene shows her right foot growing larger.
Continuity mistake: When Abe is being tortured by the Harpies, at one point, you can see that his body is covered with cuts and his blue-colored blood. The blood then disappears and reappears in subsequent shots.
Continuity mistake: In the hybraxi, Al Gore's blazer is blue and he is wearing a red tie, but in the next shot, it is brown and he has no tie.
Continuity mistake: In Metropolis on the bridge, Doomsday grabs a soldier and breaks his neck and skull. In that shot, the soldier's arms are inside Doomsday's hand and his hair is a light brown or gray. But then when the shot changes as Doomsday begins to throw the soldier to the side, the soldier's arms are suddenly outside of Doomsday's hand, and his hair is now black. (00:17:10)
Continuity mistake: Just after Engi says "I solve practical problems," he gestures towards the camera with his gloved hand. He has his thumb on his left hand lying down across the top of the guitar. Then in the next cut, just before he leans down to grab a beer, his thumb is now sticking up straight. Also, his shadow moves closer to the truck's door handle. (00:00:20)
Continuity mistake: When Frylock is watching New Jersey getting destroyed by the Insane-O-Flex, look for a building to the left through the Ferris Wheel. When Meatwad transforms into a building, the fires briefly stop, then turn on again.
Continuity mistake: When Garfield and Odie are on a fence trying to "leap" into the comic world, Odie's bone disappears in the close up shot and does not come back throughout that scene. (00:51:45)
Continuity mistake: Throughout the movie, Cinderella's hair goes from loose to being tied into a ponytail.