I can't say I hate any of the dungeons. I love them all.
I found the Woodfall Temple to be pretty cool, and it had a good atmosphere for the first dungeon in the game. The poisoned water was a nice touch, and it had plenty of interesting puzzles. The boss fight was pretty good, too. All in all, I'd say it was a good dungeon.
The Snowhead Temple was pretty neat too. I liked how it was like climbing a great tower, and the puzzles were really good. Not to mention it looked really cool. The boss was kind of a pain, but a lot of fun to fight. Overall it's a great dungeon.
Great Bay Temple was really tricky for me, but only in collecting all of the stray fairies. It was pretty good otherwise. The water wheels made for some good fun, and the puzzles were nice and tricky. I notice some people saying changing the water flow was annoying, but it's not any worse than changing the water level in the Water Temple from Ocarina of Time. And that wasn't so bad either. So personally I don't find that argument very plausible. The boss was a very good challenge, too. Gyorg was a great boss.
I'd imagine a lot of people would complain about Stone Tower Temple, but personally, I love it. It's the best dungeon in the game. It makes you use nearly everything you've gotten in the game thus far, which was awesome. The puzzles were challenging and the boss fight was epic. All in all, I'd say it's one of the greatest dungeons in the whole series.
Overall I can't say I dislike any of the dungeons. I like them all. I can't really pick a least favorite.