It all comes down to the fact that Nintendo makes the games, not us. They make great decisions, and have been for decades. I trust them with my favorite franchises since they birthed them in the first place.
If I'm THAT adamant about the Krem-Krems being in the game, I have three sets of amazing trilogies for SNES, GBA, and GBC that I can fall back on. If I want something a little different, I play DKCR or Jungle Beat (or for something ENTIRELY different: Donkey Konga).
We've got a ton to be thankful for with the way Nintendo has blessed it's fan base with Donkey Kong, I don't think we should be complaining to be honest.
