I played MH Tri with CCPro and was fine with it. I also still often play GC games and have no problem with that. Just half an hour ago I've finished Okami on Wii and my hands were aching, plus the nunchak evading did not work properly. RE4 is miles better on Wii than on dual analog controllers, and so are any games where point-and-click controls are an advantage (like advetures and RTS, I'd love to see more of those on Wii). And FPS - dual analog controllers would suck so hard when compared to wii if the aiming was manual.
Overall, I think both have their advantages. I can imagine that there will be something like wii controllers in the future, only with more buttons and two analog sticks which would both be clickable (no idea why Nintendo never had a controller with those - do they break more often or what?). Stuff like that. Can't wait to see the evolution in game controllers actually. Next generation will be interesting.
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