I'm going to go ahead and do what Luigitoilet did, but with only the four main 3D games.
DUNGEONS
OoT - Forest Temple: I'm pretty sure Scott! and I have mentioned a million times why we love this dungeon around the Zelda forum, but I'll do so again because I love it just that much. It's haunting, it's mysterious, and best/worst of all, you must play through it to gain your adolescence back. I felt connected to Link when we were both children, as though we were really experiencing the same things, but suddenly Ganondorf twists the world and I'm forced to play as an adult in an adult world. I revisited the Kokiri Forest and Lost Woods and they're plagued with beasts. All that I loved was gone. The Forest Temple was dark, boding, and almost addictive. The music and the atmosphere generated a sort of guilty-pleasure in traversing it, but it simultaneously haunted me to no end - especially the M.C. Escher/wallmaster rooms. Then the boss was what appeared to be Ganondorf himself. I was not ready for any of it, but I had to build my own courage in order to progress through this dungeon and in doing so, I matured as a person and felt connected to adult Link finally.
MM - Snowhead Temple: My beloved Gorons were tortured with the biting cold coming from the cursed Snowhead. I couldn't figure out if they built the temple, or if they merely inhabited the region which already housed it or what. It was scary. A giant, looming tower on a thin island in a vast expanse of emptiness and snow. This temple stumped me 9 years ago when I first played the game and did so many times since. When I finally beat it last year, I felt so incredible - almost as much as I did when I beat the Forest Temple in 1999.
WW - Wind Temple: I don't have much to say about it aside from its design being just about perfect. The orange and green colors created this summer/autumn zephyric (yeah I think I made that up) effect and it just really captivated me. Plus, playing as Makar was excellent.
TP - Goron Mines: The Forest Temple, Lakebed Temple, Arbiter's Grounds, Temple of Time, and Palace of Twilight were all very, uh.. temple-like. The Goron Mines, Snowpeak Mansion and City in the Sky were not. These felt very different and I feel are the three most representative dungeons of Twilight Princess - a game that aimed to expand the ideas and perceptions of Hyrule more than any other. The Goron Mines gets my vote though because it feels the most connected to the known and beloved Hyrule while still maintaining a very "scenario-based" feel. It's not some ancient, abandoned place, rather an active mining facility run by the Gorons. It shows how the desire to discover and develop new technological methods has changed the face of the Death Mountain we all know. It also shows how the Gorons aren't a primitive, tribal race, rather equals in every respect to the ruling Hylians of the land. Each are advanced in their own right and this dungeon proves that.
BOSSES
OoT - Twinrova: A perfect right-before-final-boss fight. Link faced off against Ganondorf's surrogate mother(s) and even more so, Koume and Kotake were true-hearted characters, not just some random monster found at the end of the dungeon who has no other importance whatsoever than holding a heart container, guarding some sort of artifact, and supposedly protecting the dungeon (usually from a large, remote circular room with no real importance whatsoever..) Twinrova however were seen outside the Temple in conversation and interaction with Nabooru and Link. They played vital roles in both the story and the dungeon as bosses. Kudos.
MM - Odolwa: I love the Goht fight, but Odolwa is a better character in my opinion. I must simply say that like the Forest Temple in OoT, he scares me to this day. The hollow chant he makes whilst fighting is haunting and chilling. Here is this oversized demonic jungle warrior behind a mask. You know he has a face of some sort, but you can't see it. His mask is horrific enough and the unknowing of what he really looks like strikes an even harsher fear and that is because true fear comes from what we do not know.
WW - Ganondorf: All of the bosses felt stupid in this game. Ganondorf pulled off an epic fight so congrats to him.
TP - Stallord: I think enough about him has been said before, but my true appreciation comes from his design, not just the fight itself. I love skeletons and he, along with his stalfos soldiers, felt like something straight out of a Ray Harryhausen film (I'm probably crossing imagery from Jason and the Argonauts and Clash of the Titans). It yanked on my nostalgic cord, yet felt really new to Zelda.
DUNGEONS
OoT - Forest Temple: I'm pretty sure Scott! and I have mentioned a million times why we love this dungeon around the Zelda forum, but I'll do so again because I love it just that much. It's haunting, it's mysterious, and best/worst of all, you must play through it to gain your adolescence back. I felt connected to Link when we were both children, as though we were really experiencing the same things, but suddenly Ganondorf twists the world and I'm forced to play as an adult in an adult world. I revisited the Kokiri Forest and Lost Woods and they're plagued with beasts. All that I loved was gone. The Forest Temple was dark, boding, and almost addictive. The music and the atmosphere generated a sort of guilty-pleasure in traversing it, but it simultaneously haunted me to no end - especially the M.C. Escher/wallmaster rooms. Then the boss was what appeared to be Ganondorf himself. I was not ready for any of it, but I had to build my own courage in order to progress through this dungeon and in doing so, I matured as a person and felt connected to adult Link finally.
MM - Snowhead Temple: My beloved Gorons were tortured with the biting cold coming from the cursed Snowhead. I couldn't figure out if they built the temple, or if they merely inhabited the region which already housed it or what. It was scary. A giant, looming tower on a thin island in a vast expanse of emptiness and snow. This temple stumped me 9 years ago when I first played the game and did so many times since. When I finally beat it last year, I felt so incredible - almost as much as I did when I beat the Forest Temple in 1999.
WW - Wind Temple: I don't have much to say about it aside from its design being just about perfect. The orange and green colors created this summer/autumn zephyric (yeah I think I made that up) effect and it just really captivated me. Plus, playing as Makar was excellent.
TP - Goron Mines: The Forest Temple, Lakebed Temple, Arbiter's Grounds, Temple of Time, and Palace of Twilight were all very, uh.. temple-like. The Goron Mines, Snowpeak Mansion and City in the Sky were not. These felt very different and I feel are the three most representative dungeons of Twilight Princess - a game that aimed to expand the ideas and perceptions of Hyrule more than any other. The Goron Mines gets my vote though because it feels the most connected to the known and beloved Hyrule while still maintaining a very "scenario-based" feel. It's not some ancient, abandoned place, rather an active mining facility run by the Gorons. It shows how the desire to discover and develop new technological methods has changed the face of the Death Mountain we all know. It also shows how the Gorons aren't a primitive, tribal race, rather equals in every respect to the ruling Hylians of the land. Each are advanced in their own right and this dungeon proves that.
BOSSES
OoT - Twinrova: A perfect right-before-final-boss fight. Link faced off against Ganondorf's surrogate mother(s) and even more so, Koume and Kotake were true-hearted characters, not just some random monster found at the end of the dungeon who has no other importance whatsoever than holding a heart container, guarding some sort of artifact, and supposedly protecting the dungeon (usually from a large, remote circular room with no real importance whatsoever..) Twinrova however were seen outside the Temple in conversation and interaction with Nabooru and Link. They played vital roles in both the story and the dungeon as bosses. Kudos.
MM - Odolwa: I love the Goht fight, but Odolwa is a better character in my opinion. I must simply say that like the Forest Temple in OoT, he scares me to this day. The hollow chant he makes whilst fighting is haunting and chilling. Here is this oversized demonic jungle warrior behind a mask. You know he has a face of some sort, but you can't see it. His mask is horrific enough and the unknowing of what he really looks like strikes an even harsher fear and that is because true fear comes from what we do not know.
WW - Ganondorf: All of the bosses felt stupid in this game. Ganondorf pulled off an epic fight so congrats to him.
TP - Stallord: I think enough about him has been said before, but my true appreciation comes from his design, not just the fight itself. I love skeletons and he, along with his stalfos soldiers, felt like something straight out of a Ray Harryhausen film (I'm probably crossing imagery from Jason and the Argonauts and Clash of the Titans). It yanked on my nostalgic cord, yet felt really new to Zelda.
).
