Continuity mistake: Peter picks up a wooden spoon and flicks imaginary food at Rufio. Looking at Rufio, a black plastic spoon covered in blue flicks some blue and red substance at him that has a consistency if pudding. When Peter looks at the now-covered spoon, it has red, green, yellow and blue stuff stuck on it.
Revealing mistake: Many times during the film when characters are flying, it is clear that they are flying on a harness due to their stiff, rigid movement and also due to the bulkiness that will suddenly appear on their back. It is especially noticeable at the end when Tootles sprinkles the fairy dust over himself and flies out the nursery window. (02:09:20)
Continuity mistake: At the end of the movie when Peter crawls into Nana's doghouse to greet her (after returning from Neverland) he shakes the doghouse a little as he crawls in, causing snow to fall of its roof, which lands in the two dogbowls next to it. But in the next shot the dogbowls are now empty with no snow in them and also there is a long bone sticking out one of the bowls too. (02:06:20)
Continuity mistake: When Peter Pan is battling with all of the pirates on Captain Hook's ship, he continues to knock them all to the ground with his sword. As the shots change during the scene, the positions of the pirates that lay on the floor keep changing instantly after they fall. (01:44:50)