Continuity mistake: At Skull Rock, after the crocodile has nipped off a good bit of Hook's clothing, right sock and shoe, when Hook rushes toward Smee in the boat the crocodile opens his mouth, and just as he swallows Hook he's nearly fully clothed and wearing both socks and both shoes.
Continuity mistake: After the mermaids splash Wendy with a ton of water, her hair is wet and you can tell because it is sort of hanging down and drooping. Then they cut away, then when they cut back to Wendy, her hair is perfectly dry. (00:37:55)
Continuity mistake: As Wendy is singing 'Your mother and mine' she lays Michael down. As she is laying him down, her nightgown turns white. The next time you see her, her nightgown is blue again.
Continuity mistake: In the scene where the crocodile attacks Hook at Skull Rock, there is a shot where the croc bites Hook's left foot and the shoe comes off, leaving Hook's left foot bare. In the shot with Hook wrapped around the croc's snout, the shoe is back on Hook's left foot and his right foot is bare.