- The 2005 Special Edition corrects previous sound quality errors and has new animation for five different scenes that the director was unhappy with.
- Hickory now walks to the professor instead of shimmying toward him
- Bob's JFC name tag how looks more like a name tag
- When Donna motions for Hickory to leave, the night sky can now bee seen out the door (including moving clouds and a shooting star) instead of a gray mass
- Cindy Bayer's eyes do not shift when her head turns
- Donna actually enters the spaceship instead of simply turning toward it. In addition, the background for one scene (at Donna's movie theater) has been enhanced.
- While the original 2003 release had a different voice for Bob, the film originally also had different voices for Donna Lewis and Cindy Bayer as well. All three of these voices were replaced for various reasons, but the most obvious reason for Bob and Donna was the decision to use actual actors (in this case Sara Escobedo and Nicholls Melancon V) rather than friends or friends of crew members so as to get a better performance.
- The "Special Edition" released as part of the New York International Film and Video Festival has, in addition to the new voice of Bob, two songs replacing the songs that were part of the initial release.
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