I finally forced myself beat the game and still don't really know how people could consider it GOTY. It's so short on content, and some of that content (gyrocopter) is garbage so clearly designed just to give the gamepad something to do. I didn't even find the final boss remotely interesting... I didn't have any control problems there. It took a few tries, but I generally knew how to kill him and managed to do it without much confusion. It just wasn't fun or interesting at all; same old SF64 shit being recycled as a showcase for new controls.
The only thing I really had fun with in the second half of the game was the last Starwolf fight, and even that wasn't quite as fun to me as any of the Starwolf fights from 64. The sector Omega boss made me think "hey, at least I'll be able to have some nostalgic fun with this one," then the fight turned into another lock-on centric shitfest where you circle around waiting for a weak point to come into view. A lot of people talk about how "you'd never be able to do this in the old Starfox games!" Ok... if this one hook is all the mechanic regularly leads to, no big loss.
I've sensed how much better at the game I've gotten while playing, and yes, there is a return for your efforts.... but the problem is that it's no fun. Getting better at the game hasn't made me any more interested in playing it, and frankly, I don't think the game is worth getting better at. As a rail shooter, it's got 'pretty good' levels at best. I don't consider this to be half the game Sin and Punishment 2 was, in any regard. The level designs aren't as interesting or dynamic, the bosses aren't nearly as fun, and the entire game is bogged down by trying to showcase a controller in a very intrusive way. The Wii remote was a great enhancement for S&P2, but they didn't design every facet of the game around using it in gimmicky ways to boost its usage (ie, you didn't have to shake it to sword slash). They just let the enhanced aiming speak for itself.
I'll still do another playthrough to see the levels I missed, but my opinion of this game has only gotten lower the more time I've spent with it. Getting better at the controls and removing them as an obstacle to playing has just made it clearer that there's not much to see otherwise.