DVD contains a 3D & 2D version (for those without 3D glasses.)
The 2-D version of the movie on the DVD edition cuts out the opening Floop prologue and the messages "Glasses On" throughout. The "Glasses On" sound is retained, however.
The theatrical version of the movie contained some animatics made by Troublemaker Animation staff, in particular in the Pogoland scene. This was due to the fact that the animation companies Troublemaker shipped the film off to couldn't finish the animation in time. The animation was finished for the DVD release of the film, which is why some scenes look a bit different.