F-Zero AX, the arcade counterpart of F-Zero GX, can be found in the game files of F-Zero GX in its entirety. Using a cheat device, players can have access to the full game as it originally was.

Billy's belt has AiAi's head from Monkey Ball on it.

There are a number of unused 3D models found in the game's files. These are a flag, a pylon, a coin for the Casino Palace venue, and a GameCube Memory Card.

In chapter 3, Captain Falcon disguises himself to enter a bet race for the character Silver Neelson. The name he races under is "Famicom", which is the name of the Japanese version of the NES.

A large scale replica of Nintendo's "Robotic Operating Buddy", or "ROB" for short, can be seen in the Port Town location. You can see him most clearly on the Aero Dive course.

Hidden on the outskirts of the stage Aeropolis Multiplex lies a fully animated R.O.B. model from the Port Town courses. It is cleverly placed behind a few of Aeropolis's many buildings off to the left of Mother Q. It can been seen by Space Flying to the edge of the map, though it is very difficult to get into view as the game only renders R.O.B. from certain angles. It is much easier to see it by accessing Multiplex through the debug menu.

During the final mission in the story mode, Spoiler:the player has to race a group that call themselves the Creators. The ghost that they race is actually a time trial of some of the game's developers.

The ship piloted by Deathborn is named "Dark Schneider", a reference to the protagonist of the "Bastard!!" manga/anime.

F-Zero GX utilizes an enhanced version of the game engine used by Super Monkey Ball, which was also developed by SEGA.

In Draq's Master class ending, a video is shown of him playing the game on a Nintendo GameCube.

In the ruby cup is a course called "Casino Palace". In the Japanese version this course is called "Vegas Palace".

In Mr. Ead's Master class ending, a video is shown featuring a cake that bears a striking similarity to different cakes from the Mario games.

Under John Tanaka's pilot profile, it misspells the name Jody Summer as "Jody Summers".

Early E3 footage from 2003 shows a cut track that seems to be a recreation of the track "Silence" from F-Zero X.

The Master class ending video for the racer Mighty Gazelle seems to be a parody of Transformers. Instead of transforming into a powerful machine however, he becomes a small scooter.

A remnant of the original development debugging menu can be found in the original Japanese version of the game using a cheat device. All but two of the menu items still function, and many of the game's assets, such as sounds and models, can be viewed.

GX has an unused course named st00 in the stage folder of the ROM. It will call the assets from Sand Ocean with the track Screw Drive (Aeropolis) when unarchived or viewed through GX's model viewer debug option. Strangely, though, when using either cheat codes to access the stage in-game or using the game's debug stage viewer, it will only load universal assets such as zippers and the starting gate, along with the collision data of Twist Road (Mute City). However, it does not appear to be a test course, but it's purpose appears to be to prevent the game from crashing when starting up the stage viewer, as it always loads st00.

F-Zero GX features special connectivity with its arcade counterpart, F-Zero AX. By inserting a Gamecube memory card, special characters, vehicles, parts, and courses can be unlocked in one version using data from the other.

F-Zero AX machines are extremely rare, but all of the extra content can be unlocked using F-Zero GX alone by completing some very difficult challenges, or through the use of a cheating device.

Some of the F-Zero TV interviews were either censored through minor edits or removed entirely in the NTSC release.

There a few unused graphics found within the game's files. The following are:
• A warning message.
• A message that says "Powered by Hardware R&D".
• The word "Fallout".
• Casino Laser sign.
• Parental Advisory Warning (most likely for F-Zero AX).