When Terra flies off from Narshe after the battle with Kefka, if the player takes a party of only Gau, then heads to Kohlingen and recruits Shadow, then walks all the way to the Veldt, has Gau use Leap on an enemy, then returns to Narshe with only Shadow, Shadow will leave the party even though he is the only party member. This will cause the game to lock up and leave the player unable to do anything.

When going to find Terra in Zozo, if the player only has Gau in their team he will actually have his own scripted dialogue with Ramuh.

In a 1994 Hippon Super and Game-on magazines interview, the game's field graphics designer Tomoe Inazawa wanted the Serpent Trench's ocean floor less shallow-looking by making it darker and more impenetrable, realistic and alluring than how the ocean appeared in previous Final Fantasy games:

"Well, in reality, that’s how the ocean floor is: dark and impenetrable. What has been depicted in earlier games is really a shallower image of the ocean. So I was thinking about how to convey something more realistic, so I made it dark. Dark and alluring."

The character Ultros from Final Fantasy VI’s Japanese name is pronounced as “ortorosu” and was intended to be a reference to Orthos from Greek mythology. When the game was localized, the translator was presumably unaware of this reference and transliterated it as Ultros. Later entries in the series would alternate between calling the character Ultros and Orthos.