The problem is, tons of people complain whenever a game is too different, probably even more than the people who complain games are too similar. It's happened with Zelda games (Zelda II, Majora's Mask, Wind Waker), it's happened with Mario games (Super Mario Brothers 2, Super Mario Sunshine), it's happened with Donkey Kong (DK64, Jungle Beat), it has happened with Metroid (Fusion), and in fact is currently happening with Metroid (Other M)...
There's no pleasing everyone. I wish Nintendo wouldn't try and just create whatever games they wanted to make. That's what any real artist does.