Honestly; the sentiment that Ganondorf is commonly alluded to as a clone character bothers me to a significant extent. He was hardly a clone in Melee, he just had a similar move-set. It was significantly altered in Brawl; honestly you have to discern what is similar as opposed to what is different. So if he receives some minor changes, yet again, there is quite literally no way that he will be a clone. If Luigi isn't a clone, Ganondorf isn't a clone. The moves that they do share have different properties, they are aesthetically different, and they are used differently.
Secondly... "if Ganondorf comes back"? Wwahht?