The Legend of Zelda: The Wind Waker.
This seems to be many fans' favorite, and from what I understand it is due to its open-world nature and how explorative it is. But to me, having to sail around for what feels like an eternity, with nothing but blue as far as the eye can see, having to whip out the Wind Waker every single time I wanna change direction, and when I finally find land (that is not plot important, you know, exploration), it is often a little baby island with no interest. And no, the Warp Tornados doesn't make it less tedious to travel around.
On the contrary, I love Phanton Hourglass, because there is less map to sail around in, and the fact that you have a steamboat this time, requiring no constant stop-ups when needing to change direction, all you need is draw a line^_^
On top of that, I would have like having to go through dungeons in order to earn the Triforce pieces, but instead they made it into a mere treasure hunt.
These days the fan fight of which game is overrated, lies between Majora and Ocarina, but to me, both games are great and has done equally much for the franchise to deserve their praise. So while fans are bickering between those two, I stand over here and dislike the game that everyone else agrees is a masterpiece xD
I am not terribly fond of A Link to the Past either, but I freakin' love A Link Between Worlds :3