The crater that Buttercup makes during the tag scene moves from under her to behind her before the street is moved.
The Professor tucks in Bubbles and gives her Octi (her octopus doll). As the Professor cleans up, Octi is clearly seen on the den floor.
When building JoJo's machine, Blossom takes a bottle of Chemical X from Professor's laboratory. When she puts the bottle in the machine she flips it upside-down but the words Chemical X are still right side up.
During the "tag" game in the City of Townsville, the subway exit sign above where Blossom comes out reads "Subway West". When Bubbles brakes to a stop just before Blossom tags her, it changes to "West Subway". Then after Bubbles flies off (and just before the Professor drives up), it becomes "Subway West" again.
The Baboom-Bot activates its cannon while Blossom and Bubbles are seated on each of the machine's hands. But in the machine's interior shot, the monitor shows Blossom and Bubbles as standing - together - on the street.
During the scene when the girls were on the asteroid, at the part when they were doing the "See No Evil, Hear No Evil, Speak No Evil" pose, Blossom (who did "speak no evil") and Buttercup (who did "hear no evil") were sitting in the wrong positions. such that the order became "See No Evil (as done by Bubbles), Speak No Evil, Hear No Evil". The order (from left to right) should be Bubbles, Buttercup and Blossom.