As Seen on TV / Can You Spare a Dime? - S3-E5
Continuity mistake: When SpongeBob is making the patties at the end, he puts at least 20 patties on the grill. But just after he takes the buns out of the bag there are now only 10 patties.
Mermaidman Begins/Plankton's Good Eye - S8-E22
Continuity mistake: When Plankton tries to open the safe, his arms come off. The arms stay on the safe. But when Mr. Krabs approaches the safe in the next shot, Plankton's arms have disappeared from the safe.
You Don't Know Sponge/Hide and Then What Happens - S8-E3
Other mistake: It is revealed in this episode that Patrick is right-handed. However in the episode "Krusty Towers", when asked to sign the Krusty Towers guest register, he is shown doing so with his left hand.
The Snowball Effect / One Krabs Trash - S3-E3
Continuity mistake: In "One Krab's Trash," after SpongeBob discovers the drinking hat at Mr. Krabs' yard sale, the two straws are connected to a cylinder with a hole. But when Mr. Krabs says "You were born to wear this hat!" the little cylinder has vanished. Later when SpongeBob is blowing bubbles, the cylinder has reappeared. (00:02:25 - 00:05:00)
Mermaid Man and Barnacle Boy IV / Doing Time - S3-E1
Continuity mistake: When SpongeBob zaps the pickles, he is standing next to the door. He instantly moves to the center of the room in a subsequent shot.
Chocolate With Nuts / Mermaid Man And Barnacle Boy V - S3-E11
Continuity mistake: After MermaidMan screams "To Make Out Reef" he accidentally falls over on his chair. When Patrick complains that they aren't gonna get pizza the chair is back up again.
Culture Shock / F.U.N. - S1-E10
Continuity mistake: When we first see Squidward in the canyon background, his outlining is gone. Then, in the next shot, it's back.
The Secret Box / Band Geeks - S2-E14
Continuity mistake: When the band is marching through the streets, whilst Squidward is pressuring the flag twirlers to move faster, there are some fish drumming behind them. One is a blue fish wearing a yellow shirt seen standing on the left, and another is a brown fish wearing a red shirt seen standing on the right. When the flag twirlers behind to fly off the ground, those two fish have swapped places.
Mermaid Man and Barnacle Boy / Pickles - S1-E6
Other mistake: In the end credits for the episode "Pickles", Bubble Bass is named "BubbleBass" (without a space).
Mermaid Man and Barnacle Boy III / Squirrel Jokes - S2-E4
Revealing mistake: When we see Billy get told about the stupid squirrel, he has a sleeve going through his arm. The moment he starts talking, the sleeve disappears and his arm extends over his shirt. Around the end of the shot when he's being pulled away, the sleeve returns.
Character mistake: In "Sandy's Nutty Nieces" SpongeBob gets thrown and flung at Sandy's treehouse, then when he falls down and Sandy opens the door, SpongeBob's shirt color changes. (00:01:25)
Rise and Shine / Waiting / Sing a Song of Patrick - S5-E1
Factual error: As Patrick's song causes havoc, two airplane pilots deserts the airplane and deploy their parachutes. The issue with this is that the two pilots should have come to a stop relative to the airplane's movement.
Roller Cowards / Bucket Sweet Bucket - S5-E8
Deliberate mistake: In 'Bucket Sweet Bucket' there's no way that Plankton managed to reach with his paint brush to repaint the entire front of his establishment from the top of Squidward's head.
Plot hole: After being spared, Medieval Sandy announced that she will help in the defeat of medieval Plankton. How did she know what they were planning?
MuscleBob BuffPants / Squidward, the Unfriendly Ghost - S1-E11
Other mistake: When Squidward is on the royal bed, Spongebob's Pineapple is nowhere in sight.
The Krabby Patty That Ate Bikini Bottom/Bubble Buddy Returns - S8-E15
Continuity mistake: At the beginning of bubble buddy, right after SpongeBob reads the letter from bubble buddy, Gary's swirl is blue and his spots are red.
Banned in Bikini Bottom/Stanley S. SquarePants - S5-E20
Continuity mistake: In Stanley S. Squarepants, when SpongeBob and Stanley go see Squidward when he's getting the newspaper, both Squidward and the newspaper change position in between shots.
Club SpongeBob / My Pretty Seahorse - S3-E12
Continuity mistake: In "My Pretty Seahorse", Spongebob is using a spatula with slots in it. Later, when Mystery eats it, the spatula is now completely flat.
Culture Shock / F.U.N. - S1-E10
Continuity mistake: In "F.U.N.", Mr. Krabs sets down the Krabby Patty in front of Plankton. Almost the whole plate is on the yellow part of the table, but when the camera cuts to Plankton, the plate is mostly in the red part of the table. In the next shot, the plate returns to its original position.