Most of you have probably heard of the infamous glitch in Phantasy Star IV that messes up characters' stats when they reach level 99. It was fixed on the Phantasy Star Complete Collection version of the game. Well, some folks over at GameFAQs have been looking into the Wii version and discovered that it also has this bug fixed!
Apparently there are also some changes to color effects in some attacks and boss animations, probably to reduce chances of seizures. Nintendo has had a lot of problems in that area, after all.
All this makes me wonder if there are any similar changes to PS II or III.