"The Sponge Who Could Fly" storyboard includes a deleted scene that had Patchy the Pirate ripping off a SpongeBob band-aid while disavowing his love for SpongeBob, although he is not seen ripping it off in reverse.
This is the first DVD to include an audio commentary.
"The Sponge Who Could Fly" is the only season 3 episode on this DVD.
There is a PAL VHS with the same name and set of episodes for the British and Australian markets.
On the credits of this DVD, "The Sponge Who Could Fly" is simply called "Lost Episode," despite it being called "The Sponge Who Could Fly" everywhere else on the DVD.