Continuity mistake: When John says, "You offend reason sir," Peter floats up. The large light fixture is hanging from the ceiling. However, in the next shot facing Peter when he says, "Just think happy thoughts," where is the light fixture? It's gone so Peter can fly around the ceiling, but it's back again in later shots.
Continuity mistake: Unable to make his shadow stick Peter is upset and when Wendy surprises him he zooms up to the ceiling and bangs his head. In this shot the light fixture hangs flush with the ceiling under a decorative medallion around the base. Later, when Peter floats to the ceiling after John says, "You offend reason sir" the fixture now hangs way down on a very long chain.
Revealing mistake: Aboard the Jolly Roger, in the very next shot after Smee jumps overboard, Peter twirls his sword in mid-air and catches the hilt. This is not the same sword he uses in the previous or following shots. This sword doesn't have the gold hand guard, so as to be able to catch it easily. The hilt on Peter's sword is in the shape of a leaf and the hand guard is the leaf stem.
Revealing mistake: Coming back to look for his shadow, Peter flies into the nursery window and he steps onto the wood floor. In this close-up Peter moves his left foot and as he does Jeremy Sumpter's real shadow is seen under his foot. His shadow is also seen when he is in the hallway then motions for Tink to be quiet, his arm shadow moves across his chest.
Deliberate mistake: Wendy gets a needle and thread, then shows Peter the needle. As she says, "This may hurt a little," she shows the sharp needle to him. When she does the light in the room becomes brighter at this point (not a deliberate pun) as compared to the dimly lit nursery until this moment. It stays brightly lit until they leave for Neverland.
Deliberate mistake: John yells, "I've got it! I've got it!" jumps onto his bed and we see the length of John's one blanket, mattress and bed frame near the other furniture. In the next two shots as John runs across his bed, the blanket at the foot of the bed is not only pulled all the way out, using what hung over the foot of the mattress in the previous shot, but another blanket is added for extra length. Most blatantly apparent is the span of this mattress and bed frame, to increase the running distance, in relation to the furniture around it.
Continuity mistake: In the hallway Peter struggles with his shadow and while sitting on the dresser the large fan picture hanging above the dresser falls down onto the dresser top as a result. Peter still sits there and after Peter yells, "I've got you now!" there is a close-up of the dresser as Peter falls off and the back is seen but the large picture is missing. It couldn't fall forward as Peter blocks it when he sits there and it couldn't fall behind the dresser because the back has a lip on it. In all of the subsequent shots of the dresser and the floor the picture is not seen, it simply vanished.
Continuity mistake: Smee opens the door to Hook's stateroom, calls out, "Cap'n?" and from the exterior we see the large globe to the left. When Smee walks in, the globe is seen again from the other side, but the globe shows the exact same region and markings as when it was seen from the doorway.