Mr. Stenchy - S1-E4
Continuity mistake: The second time that Jumba shoots Gantu with the orange string that wraps him up, the highest it gets is his shoulders, however, when Gantu falls to the floor, the string is now in three ringlets above his forehead.
Clash!! Sonic VS Knuckles - S1-E5
Revealing mistake: Right at the end of the episode, when Amy is telling Knuckles he should apologize, Amy has two right hands.
Continuity mistake: When Anakin prepares for take-off, C-3PO and R2 can be seen standing right by his fighter. But as he takes off, they can suddenly be seen standing by Padmé - several floors above.
Continuity mistake: When Raven telekinetically reassembles the broken chime bead necklace, it has about nine beads and is rather tight, but before and after that the necklaces feature about 13 or 14 beads and are wide enough to fit around the others' necks.
Plot hole: It's revealed at the end of the episode that the reason Tommie was sleep walking was because he was so nervous about the 5th grade test. However, he was sleep walking before news about it was given (ie: The beginning of the episode).
Continuity mistake: When Kimiko says "Will you two please stop abusing the English language!", Raimundo's eyes are blue.
Continuity mistake: Colonel Gathers says to Brock Samson, "You're not in the Marines anymore." But in the earlier episode, "Past Tense," after the credits, there is a flashback to college again and Brock says, "I'm off to join the Army"
Worlds Collide: Part 3 - S3-E6
Plot hole: In their previous encounters with the Triceratons, the Turtles had to learn the hard way that the Triceratons breathe not oxygen but a combination of nitrogen and sulfur, which is detrimental to most Earth lifeforms, and thus had to wear special rebreathers. When the Turtles, Splinter, April and Casey enter Zanramon's throne room along with Traximus, none of them wear any breathing equipment to protect themselves from the hostile atmosphere.
Beauty and the Obese: Part 1 - S1-E1
Continuity mistake: Right after the opening scene where the model suddenly inflates to fat, we are taken to The Tender Loins club where the exterior shot shows a line of people with a bouncer checking each one. In this shot, his arms are down at his side, but then it cuts a close up and suddenly he has his hand lifted to his face looking at someone's I.D. (00:01:40)