Use the Classic Controller for VC games... the Wavebird/GameCube controller won't work with all VC games.
If you're like me and are obsessive over matching hardware, the Classic Controller is for you.
If you're going to get GameCube games, play the GameCube games with the GameCube controller. I'd pick a platinum GameCube controller.
I wish they would release a GameCube special edition controller that has the same look (font, style) as the Wii controllers.