Mewtwo and Ganondorf are the two things that need to change, but at the same time there is a chance that they won't only because it has been established. Mewtwo is out, and Ganondorf has a Captain Falcon moveset. Focusing on adding new things and have those things on the backburner makes the most sense. Yes fans will be upset, but they've also accepted it.
I still think Ganondorf having a sword taunt was them saying "we tried to get it done guys, but we ran out of time." At first it pissed me off: Ganondorf pulls out his sword and laughs. It taunted the fans, instead of the opponents. But after I thought about it, it kind of felt like a sign that hadn't forgotten that Ganodof has a sword and want to add it but just ran out of time.