In the final scene of the episode, Homer is sent to the real world in the first ever live-action scene in the show. It was filmed on Ventura Boulevard in Studio City and directed by David Mirkin, who later said that Fox "couldn't have been less supportive" because they thought it would be too expensive. The scene involves a crane shot which pulls back as the credits are shown. Fox "begrudgingly" allowed Mirkin to use a crane for the ending. The scene was filmed on a sidewalk with the crane on the street and Mirkin was not able to fully stop traffic for the shot. Because of this, when the camera swings around, a line of cars can be seen backed up on the street. Mirkin was also disappointed in the quality of the camera pan, again blaming the lack of support from Fox and the inability to halt the traffic.
In the Third Dimension, Homer walks by a string of hexadecimal numbers in the background: 46 72 69 6E 6B 20 72 75 6C 65 73 21. In ASCII, the code that computers use to represent characters, this translates to "Frink rules!"
If you look closely, you can see Groundskeeper Willie is already stalking Bart from the Flanders' garden within seconds of the opening credits.
One of the key shots in the segment was where Homer steps into the 3D world and his design transitions into 3D. Bill Oakley considers the shot to be the "money shot" and had a difficult time communicating his idea to the animators.
The original idea for "Homer³" was that Homer would visit several dimensions, including one where everything was made out of paper cut-outs, but they decided that it would be too complicated.