Well, here is my rankings of the games, but it might be a bit messy, because it's the second time I wrote them up because I closed my browser by accident...
1) Link to the Past is at the top of my list, and has been since I played it the first time. It has great music, and graphics, and I personally love the overall feel of the game. Storyline it top notch, and the entire aspect of it as a whole is great.
2) Link's Awakening/Oracle of Ages. I couldn't decide which one I like better. LA had a good storyline, and I enjoyed the game as a whole. Good overworld, good dungeons, enjoyable music. Good classic Zelda game. OoA is also great. 2 awesome overworlds, and an awesome plot. Once again, good music, good clean Zelda.
3) Oracle of Seasons was quite good actually. I didn't like it quite as much as LA or OoA, but it was still a pretty good game. 1 1/2 overworlds to explore, and a very interesting storyline.
4) The Legend of Zelda is in fourth place. It's the pioneer of Zelda. It was revolutionary for the NES, and for that it had some pretty dang cool dungeons, and a very unique overworld system. I like it because it's a classic. Not too much of a challenge anymore though.
5) Ocarina of Time. First 3D Zelda game. Good long game with an interesting gameplay style. Although, I feel as though the storyline was a moderate modified LttP storyline (3 dungeons for 3 pendants in the first world, 7 crystals/medallions in the second world) Even with that, it was a very good game, and had pretty good cutscenes.
6) Twilight Princess/Wind Waker. These both hit number 6 here. I liked both gameplay styles and graphics on both of them. TP had some damn good graphics, and I loved the music. Quite epic I must say. It had an alright storyline, but it was way too linear. Couldn't explore too much on your own. Wind Waker had a very unique style. The graphics fit the game pretty good, as I don't think a OoT/TP style would have fit too well. I loved the music, especially Dragon Roost Island. It had some good dungeons, but could have used more then just the Earth Temple, and Wind Temple. Possible 3 more would have been good.
7) Majora's Mask was good. It had some good music, and very good dungeons. The time limitations kinda sucked. I hate those types of limitations. The overall concept of the game was pretty neat though. The mask system was quite a dare, but it was pulled off very well. Might good game.
8) Zelda II was pretty good. I do have to say, I am thankful Nintendo didn't take Zelda down this route. I'm glad they went back to the old style with LttP. Good long game, and ok music for it's time. Didn't much care for the overall style of it, but I still passed it, because it was an interesting game. It could have used a few more extra lives, or at least have them return after you die.
9) Four Swords Adventure was pretty good. I loved that they used LttP graphics, and music updated. I think the game was pretty good though, but it could have used a better, longer, more in depth single player storyline instead of using the same exact one as the multiplayer. I mean, they used LttP sound and graphics, they could have even made a game half the size of LttP, with the same style as it's sound and graphics donator, but alas, they didn't. Still pretty good though.
10) Minish Cap was decent, but in my opinion, way too short. It was a good game, but only having a few dungeons kind of sucked. The story was a little under the standard of other Zelda games. Here is when they started getting lax on their games...
11) Phantom Hourglass was an ok game. The graphics could have been cleaner, and made a lot better. The music was boring. Dungeons were alright, but the Temple of the Ocean King did it in for me. I refused to play through it again, as it was just boring as hell... Plus the only way to play was with the stylus and touchscreen... That should have been an option, instead of forcing us to play it like that...
12) Four Swords, didn't play much of it, but I wasn't too fond of it. I don't really have too much to go on here, but I'll give it credit though.
On another note, I think Nintendo is trying to hard to replicate the popularity of OoT. Maybe they should just give up on that, and just put their effort into making a new clean crisp Zelda that isn't meant to beat OoT. Maybe with that, they could actually pull it off.