I'll go the way of Egregious and give the best and worst of ones I've played - only my top three, though.
Ocarina of Time, best - Forest Temple and Shadow Temple. These two have one thing in common that I love; the creep factor. Both soundtracks for the temples set my hair on end, and I love that. But aside from that, the Forest Temple does an amazing job at setting the bar for the temples to follow; you know right off that they're only going to get harder, more challenging and potentially more frightening. There's not a lot that I don't love about that temple - especially the boss battle. The way you're implemented to fight Phantom Ganon is not only unique and creative, but it's nerve wracking. I like when a game makes me anxious and jumpy at the thought of missing my target, and my target hitting me. The Shadow Temple isn't far off in the fact that I love everything about it, as well. The foreboding boat right is excellent. Plus, the soundtrack... oh, the soundtrack. The drums send it over the top, really. Because think about it, Bongo Bongo is playing you a little song, the closer you get to him. Bongo Bongo used to terrify me, as a child - I couldn't fight him, my grandmother had to, which is another reason I love him more now, as an adult.
Ocarina of Time, worst - The Spirit Temple. This was very hard for me, because in all honesty... I love every single temple in Ocarina of Time, and it's hard to find flaws. But, I will say that going back and forth through time, and having to go all the way to the Temple of Time and then all the way back, got a little frustrating sometimes. But that's about it.
Majora's Mask, best - Stone Tower Temple. While, again, I love all the temples, this one is my absolute favorite and it has no rivals. Not only because of the challenge, and again... the creep factor, but also because you have to actually turn the temple upside down to finish it. And even though it's only upside down, it feels like a totally new temple. I love the mini-bosses, the boss, and everything else about it. But my favorite thing of all is the soundtracks for both the regular and inverted temple. I could listen to those two tracks until the day I die.
Majora's Mask, worst - Same reason as before, this is hard... but I'll have to go with Snowhead. Only because the temple absolutely stumped me, when I was younger. And I actually didn't play for months, because I simply couldn't figure it out. I had the annoying habit, every time I played, of knocking out the central pillar wrong and making it impossible for myself to reach the boss chamber. So, I would have to start all over. But, that's the worst thing.
Twilight Princess, best - Twilight Palace. I love the look, feel and sound to this temple. The soundtrack was beautiful, the scenery in Twilight (in general, not just the palace) was gorgeous, and it's where I spend most of my time, lollygagging about, when I play the game. Plus, those Zant Hands freaking creep me out. The music is horrid! I always get so panicked and flustered, I drop the Sol in the wrong place and very nearly lose it. But it's just something that I love.
Twilight Princess, worst - There are actually several temples in Twilight Princess that I wasn't fond of. But City in the Sky and Water Temple were the worst! I hate, hate, hate the Water Temple. It's over complicated, confusing and nothing short of a labrynth. There's having a challenge, and then there's too much of a challenge. I love the boss, though. By the time I reach Morpheel, though, I'm ready to throw the controller through the screen. City in the Sky is just flat-out annoying. While the boss is good (like most of the bosses in Twilight Princess are) the temple itself is so far from lacking, it's not even funny. I hate the open floor, I hate the ridiculous puzzles, I hate those stupid Helmasaurs that seem to be everywhere, and I hate the music. The music is annoying and weirds me out... and not in the good way. Those freaky Oocoo noises get really old, really fast.
