Wet Painters / Krusty Krab Training Video - S3-E9
Audio problem: When Mr. Krabs comes back to his house, he eventually encounters a stack of 11-12? pictures, but we only hear him take 5 or so before he runs into Spongebob.
Born Again Krabs (aka A Penny Saved) / Safety Freak (aka I Had An Accident) - S3-E17
Audio problem: At the end of "Born Again Krabs", SpongeBob is talking to The Flying Dutchman on the phone. SpongeBob's dialogue isn't in sync with his mouth.
Selling Out/Funny Pants - S4-E5
Audio problem: In "Selling Out", Mr. Krabs explains to Spongebob that he's retiring. When he says "bowls of fruit", his mouth doesn't match the movements.
Squidtastic Voyage/That's No Lady - S4-E15
Audio problem: In "That's No Lady", Mr. Krabs throws a megaphone behind him, but there is no sound of it clattering after him throwing it.
Money Talks / SpongeBob vs. The Patty Gadget / Slimy Dancing - S5-E10
Audio problem: In "Slimy Dancing" in the scene where Squidward and Spongebob perform their act, we first see Squidward making Spongebob spin around. There's a shot where it shows Squidward inside Spongebob. The curtain in the background in the shot remains still, even though you can hear spinning.
20,000 Patties Under the Sea/The Battle of Bikini Bottom - S5-E17
Audio problem: In "20,000 Patties Under the Sea" When Plankton says "Ah who needs that rustbucket anyhow!" his mouth is way out of sync.
Krusty Krushers/The Card - S6-E13
Audio problem: In "The Card", when Patrick shows SpongeBob the four special talking cards, watch carefully. You hear four punches landing on Barnacle Boy, but see only three fists come in from the right side.
New Fish in Town/Big Sister Sam - S8-E10
Audio problem: In "New Fish in Town", Squidward pops out of his door and says "the bassoon." When he says it, the words are heard, but his mouth movements are delayed.
Audio problem: When Spongebob, is in the pile of rubble left after Squidward unraveled, he picks up his phone receiver. Then, Gary slithers away and you hear Spongebob pressing the keys on the phone, but when it cuts back to him, he is only holding the receiver.
The Fish Bowl/Married to Money - S9-E18
Audio problem: In "The Fish Bowl", after Patrick takes the bowls of ice cream and eats them both, he throws them behind him. The bowls just disappear in mid air without leaving the frame (also an "other mistake") but the sound of the ceramic bowls breaking is still heard.
Patrick's Coupon/Out of the Picture - S10-E10
Audio problem: In "Out of the Picture", Larry is holding a fork in his hand when Squidward shows him his painting. In the next shot, Larry raises his claw and the fork is no where to be seen and no sound of it clattering is heard.
Chosen answer: You need to provide a little bit more information to be able to answer a question like this. In what region is it not being shown? I see it being replayed here in Australia fairly frequently. As for a general reason, there does not appear to be any for why it specifically might have been taken off the air in any country or region. Like any show certain episodes can sometimes not be replayed for long periods for unknown reasons.
Lummie ★