Beat it last night, saved over my file with Hero mode before I realized what the implications were. This is important, as I don't see myself playing this one again for quite a while.
The biggest issue to me was the forced linearity. The only options I saw where you could deviate were in taking the time to help out various Skyloft people (or not) and what order to go after the three dragons with. It's not that having a set dungeon order is new to Zelda games, but there was never a time to explore while looking for the next big thing. It was always right there. I'm actually more inclined to replay OoT, where I can complete the Fire and Water Temples before ever setting foot in the Forest Temple if I so choose.
I also didn't like some of the out of place objects. I found two of the Scrapper items before I found Scrapper, and kept trying to figure out what they were for or did, with no feedback at all from the game. When I find something odd, I expect to be able to do something about it. On a similar note, I still have no idea how I was supposed to get through Ghirahim's "perfect blocking" mode. Was this a place a shield was actually used? The first two bosses both offered very little feedback for success, which is very unusual and was fixed for other parts of the game. The Cistern boss and the Tentalus were good examples here of giving the player context clues. Also the Scorpion in the desert: "Wait, this floor is sand. I've been blowing sand away this entire dungeon. I wonder what would happen if..."
Motion controls were a mixed bag, mainly based on the speed of my swings. Some fights seemed to reward very fast hits, while others would doom you for trying to orient your swing against defenses. The harp was also a pain, as the game would register a smooth swing as jumping from low to high notes and back again.
Best part of the game was probably the constant use of older items. So many times I used the beetle for scouting, then completely forget that I could use it for switches or attacks.
Overall, a good game. I give it an 8.5 or so. For LoZ games I've played, order is now:
1) OoT
2) LA
3) TP
4) LttP
5) MM
6) Legend of Groose
with WW receiving an honorable mention for being stuck on the Triforce hunt.