When Nana the dog jumps on Father in the nursery, you can see him clearly slip her a dog treat from his left hand as he rises off the bed.
When Hook arrives to see Tiger Lilly drown, he is clearly holding a hat with his left hand, even though he's supposed to not have one.
When Peter comes in through the window and the camera pans to the adult
Wendy, the Steadicam operator and camera can be seen.
When the hatch on Captain Hook's ship is opened for the first time, you can see stagehands below deck a short time later.
While Peter and Wendy cruise around Mermaid Island, the mermaids flip around in the background, while the crew who are helping them flip can clearly be seen.
When Peter Pan first jumps on the fireplace and then takes off in flight, you can see an absence of a ceiling; revealing an overhead stage light.
Peter Pan refuses on multiple occasions to let Wendy touch him, saying that nobody has ever touched him, but has no problem giving Captain Hook a hand during a musical number midway through the show.
Christopher Walken forgot his line during the "Peter has found a mother" exchange of dialogue. He goes on about 30 seconds stuttering nonsense and coughing before finally remembering: "The game is up." Being a live musical, there were no redos or second chances. Every DVD copy includes this mistake.