Least favorite is definitely Wind Waker. Exploration is a huge thing in Zelda games, WW completely got rid of exploration with your means of travel in this game. Sailing. How I hated the sailing. The map in WW is HUGE, maybe the biggest map of any Zelda game, but they did nothing with 90% of it. It's nothing but sea. Only completionists will actually find something of value out there, but us normal people are going to hate it! The sailing took forever and got old immediately, even after you get the teleporting song sailing still takes way to long. I would usually just point Link in the right direction, then change the channel and watch TV for a bit because nothing even happened while you were sailing. Seriously, you wouldn't even get attacked by enemies while sailing! I can't tell you how many times a shark would swim next to me while sailing and do absolutely nothing at all, and on the rare occasion that a shark actually does attempt to attack, he would miss me by a mile. The enemy music became very obnoxious to me because of this. Then there’s that awful triforce fetch quest. Do I even need to say why I hate it so much?
Phantom Hourglass and Spirit Tracks are two more reasons not to like WW. You know what Nintendo did when we complained about the sailing in WW? They took our complaints and threw them out the window, then made PH and made us sail some more. But even though it's annoying, I understand why Link has to sail, it's not like you can just swim across the entire ocean (but that just begs the question of whether or not Nintendo should have flooded all of Hyrule in the first place), so I understand why you have to use such an annoying means of travel. Then ST came out. There's no reason why I should have to use that train because this time there's actually land I could walk on if Link wanted to, but he doesn't want to. Instead of using his legs and walking, Link wants to take that stupid train everywhere. That would be like me getting in my car and driving to my next door neighbor. If it weren't for WW those two crappy games wouldn't even exist.
Then there's the toony graphics. What's the deal? Isn't Zelda one of Nintendo's more serious games? That'd be like taking Halo and making it look like a cartoon for babies, it's just a plain bad idea.
WW just sucks, it's a terible game.