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.
Other mistake: When Lilo is writing the letter to the mayor and includes that very well drawn picture of Gantu, when she writes the lines below the picture she writes over the last two lines three times each before crumpling it up.
Continuity mistake: Hamsterville climbs up the ladder and pokes the hamster watering thing, and a little pours out, but when he climbs fully atop the platform, the puddle of water has disappeared.
Hunka Hunka - S1-E36
Continuity mistake: Stitch turns off the lights and a minute later everyone falls in love with Pleakley. He stutters and screams as he's chased away. One shot later, Pleakley is still by the door and the crowd in its original place. The in between shot of Lilo would have shown the crowd running back, and there was no audio signifying their return, and the shot didn't last long enough for their return anyways.
Other mistake: Pleakley reacts to Jumba's "Where is my experiment?" too early.
Other mistake: Stitch has amazing intuition, as when he picks up Drowsy's pod, all of them say 3 on them,and at least one other says 360. Also, when Pleakley listed the experiments, all of them were 2's, other than Drowsy (360).
Spats: Experiment 397 - S2-E14
Plot hole: The plot reveals once someone counts 1-10, the arguing effect wears off. However, when the boxing ring audience (all under the arguing spell) join in the counting after Lilo says "1...2...", the spell is broken for everyone in the crowd - but the audience only counts "3-10" (joining Lilo with the counting starting at "3") - this should not have broken the spell for them as they did not say every number.