There is also the Gesthal puppy minion that is meant to be a parody of Emperor Gestahl from FFVI (making fun of the fact that his FFVI SNES sprite more looked like a dog).

Also the NIN AF1 set is clearly based on Yoshitaka Amano's artwork of Shadow, and the GSM's AF set is also strongly inspired by Locke's Amano artwork as well. To say nothing of the magitek armour mount (which the default one you get for completing the initial 2.0 storyline even plays a remix of Terra's Theme now as it's BGM). There is plenty of FFVI stuff in the game already, you just have to look for it.