Used a similar staging method as the first film. The Cube was a single set consisting of identical panels for the walls and the floor (in some shots it was a green screen). For the previous movie, the crew clamped large lighting gels to the outer frame of the set so they could change the color scheme, but the all-white high-tech color scheme of this film simplified the lighting, and all they had to do to change the set in regards to what room they wanted to depict was to write on the walls with a grease pen and position certain props necessary to the plot. Some shots required the use of a green screen, especially when any door was opening. Some scenes used a full box to depict the room, but it was always the same set, just modified with extra panels.
60659 is the 6115th prime number, a reference to the first movie in this trilogy where it obsessed over prime numbers as the key to escaping.
While the characters are recalling the last things they remember before being in the Cube, Geraint Wyn Davies' character, Simon, states he was in New Haven. When the screen divides into different views, the shot on the right/upper right of the screen is an alternate take from another Lions Gate film Davies had a role in, American Psycho II: All American Girl. The similar shot in American Psycho II can be seen shortly after 1 hour 6 minutes into that film.
When Jerry mentions teleportation Max asks "as in beam me up Scotty" referencing the original series of Star Trek. Fun fact, Kirk never actually said those exact words in any episode.