Continuity mistake: Moira throws the cell phone out the window with the antenna extended and the flap opened, and it is buried by Nana this way. When Peter finds it at the end of the movie however, the antenna is down and the flap is closed.
Continuity mistake: When Smee and Captain Hook are alone on the ship at night, Smee stands up just after eating chicken off his plate. His blue bandana hangs down his left shoulder near his plate. However, after a shot of Hook when it faces Smee again his bandana is now short, just resting on his left shoulder.
Continuity mistake: After finding his son hit a home run in the game with the pirates, Peter decides he must learn how to fly. The ball his son hit comes flying from the sky and hits Peter in the head, knocking him over. When he hits the ground, he is lying on grass, but one second later he opens his eyes on grey rock.
Continuity mistake: When Smee gives Hook his nightcap drink, Hook takes it in his hand and holds it at the top of the goblet so that it is hidden under his hand. But in the very next shot he is holding it by the handle and the whole goblet is now visible with a small black umbrella sticking out the top. Additionally, the position of the small umbrella that sits in the goblet changes a few times.
Revealing mistake: In the last scene that we see Maggie and Jack before they are kidnapped, when the bed covers fly off their beds, you can see that they are suspended by their corners. This is particularly obvious when they are lifted up. The middle of the quilt sags while the corners are lifted.
Revealing mistake: In one shot when a group of the Lost Boys are catapulted up into the air so that they can land on the side of Captain Hook's pirate ship, when they all hit the wooden pillared side it can clearly be seen to bounce as they land on it. It is possible to give some leeway on their weight making some effect - but not so much as to make the wood 'bounce' like it is made of soft material.
Revealing mistake: When Tinkerbell is waking up all the Lost Boys and announcing Peter Pan's return, we see a shot in which Tink flies around a curly-headed boy. When she does, you can see the wire used to move the figure around his head. It is most visible when the boy turns his head toward the right side of the screen.
Continuity mistake: Before the big battle scene at the end, between the Lost Boys and the pirates, Peter shows up with a lot of makeup, mainly mascara and shadow on his eyelids. His extra makeup appears and disappears throughout the whole scene.
Continuity mistake: When Captain Hook is bent down talking to Jack in the broken clock shop, in the first shot all of Jack's fringe is neatly sticking out from under his baseball cap, but after Hook places his hand on Jack, all of his fringe is now combed back under his cap and is not visible.
Continuity mistake: When Peter is fighting Hook in front of the crocodile clock, he uses his sword tip to fling the pirate-hat and its wig attachment off of Hook's head and it flies over and lands on one of the Lost Boys heads. When it lands on his head it is wonky. But in the next shot it is sitting on his head perfectly straight and is then wonky again in the next shot.