Continuity: Spongebob puts his shirt/shorts clothing on after his dream, and he is wearing underwear. Then, in front of the mirror, when the back of the shorts falls down, it shows his rear end with no underwear.

Continuity: When Mr. Krabs is set on fire he runs past once with his clothes, then he runs past in his underwear, then he runs past naked, and jumps into a barrel of water. His clothes are back on.

Continuity: The glasses and wig on the "ice-cream lady" in the big red monsters mouth fall off in one shot, but they're back on a few shots later.

Continuity: The "Galley Grub" sign in Krusty Krab 2 moves from above the door with a porthole in it, to next to the door with the anchor painted on it, and then totally disappears later.

Continuity: Spongebob steps on Plankton, then wipes his shoe, leaving a big green smear on the road. In the following shot it's gone.

Continuity: When Spongebob and Patrick approach the county line, they meet the two laughing fish; one is short and fat, one tall, thin and has two patches on his knees. These patches disappear in one shot; when the short fat one is bouncing on the other one's stomach and they're both laughing.

Continuity: When the Goofy Goober Peanut starts singing to the kids, he has a lollypop in his hand, but when the pointing hand comes out of his stomach it is gone, and in the next shot it's back.

Continuity: After Spongebob and Patrick receive their "seaweed mustaches" they jump off the edge of the trench. When they figure out that they just jumped off the edge they look down, and directly below, the trench wall is visible with nothing on it. Yet, when they are about to hit the ground there is a branch.

Other: When Spongebob says to Mr.Krabs "Your life is in our hands", Patrick appears out of nowhere - he was sleeping at the Goofy Goober ice-cream party boat.

Continuity: In the courtroom scene with King Neptune, Misty’s gold band keep disappearing and reappearing.

Continuity: In the Goofy Goober Nut Bar, the pictures hanging on the wall behind Spongebob change in every shot.

Continuity: When Spongebob runs through the skulls to get to the Free Ice Cream Booth, a skull and bones fly out and land in front of the Patty Wagon. Two shots later though, they're gone.

Other: At the beginning, the pirates find about five tickets in the treasure chest - nowhere near enough to admit all the pirates into the theater.

Continuity: The paddywagon has pickles for wheels but when they pull up to the gas station, they are just regular green wheels.

Continuity: In the live-action pirate beginning, between a wideshot and closeup, the sky changes from grey/overcast to bright blue with fluffy white clouds.

Continuity: In the scene where Neptune originally enters the Krusty Krab 2, if you look out the window the original Krusty Krab isn't there. It also isn't there when he says "Have this pole executed." (outside the Krusty Krab 2)

Continuity: In many shots, the wooden stairs leading down the trench are not there.

Continuity: When Spongebob and Patrick go to the bar on the way to Shell City, there is a hole in one of the wooden saloon doors which switches to being in the other saloon door when they sneak out.

Continuity: The distance between the two Krusty Krab restaurants keeps changing throughout the movie.

Continuity: When Spongebob wakes up the morning after his ice cream antics at Goofy Goober, there is a table and two chairs by the stage which disappear.