you can blame miamyoto's left handedness for starting the tradition, lol. But I loved the fact that he was left handed. Its just better for some reason.
What? You've never played the previous games? How sad 
Playing both GC and Wii versions, I think the GC TP makes much more sense than flipped and with waggle. For starters, I always got annoyed by how long I had to wait to do another spin attack because that was the first game that introduced a waiting period (really dumb) but because its a slower input on the GC (wow, first time I've said that) I never notice that I have to wait
I hope they don't just "flip it" because after comparing the two TP versions, its obvious that the world design had the vision to be like the GC version. I started on the Wii version then went to the GC and even though I was used to where everything was in the Wii version as a biased, I felt that the GC layout made tons more sense because I was playing the original layout and not the flipped one.
Sounds like artsy BS but its amazing how much better the game felt NOT flipped.
Responses:
1. I agree about Link being left-handed. Yeah, it's minor, but it makes him go against the "dominant" dexterity of right-handedness that you usually see in shows/games.
2. Yeah...the only
Zelda games I've played so far are
A Link To The Past and
Twilight Princess. Oddly enough, Smash helped me get into the Zelda series. When I first played
SSB64, aside from Mario and Yoshi (and Donkey Kong to an extent), all the characters were new to me as I had never encountered them before, including Link. However, during gameplay, I happened to gravitate towards Link, due to his playstyle and the fact that both of us liek swords.

While reading his bio, I noticed what games he had originated from. Then down the line when I happened to be at Funcoland store, I did not know which game to get, as I had gotten
Pokemon Sapphire Version for GameBoy Advance already and I was unfamiliar with a lot of videogame franchises. I happened to notice the GBA remake of
A Link To The Past sitting on the shelf, and I decided to get it to try it out. The game was a
blast to play.

Unfortunately, I lost the cartridge after making some progress defeating the foes of a few dungeons in the Dark World, so I still haven't finished the game. But that gaming experience helped me get immersed in the Zelda world. Later on, when the innovative Wii was announced, I read that a
Zelda game would be launching with it as well, so I made
Twilight Princess the first game I would get on the system. I haven't finished the game yet (currently at the City In The Sky), but it's the best action/adventure game I've ever played.

I intend to play as many of the previous
Zelda games as I can, and anticipate the upcoming Skyward Sword. Thankfully, the
Ocarina of Time 3DS remake will be helping things...
3. Personally, I would have preferred the Wii version of
Twilight Princess to retain the layout of the Gamecube's version, to preserve Link's dexterity and the overall feel of the land. But since I
I've played the Wii version first, I prefer its orientation, and would be a bit startled if it got flipped. And the Spin Attack delay didn't bother me too much, even with the Wii version... Once I adjusted to the delay, the sword fighting still felt smoothly. I guess the Spin Attack ending lag in
SSB prepared me for it in
Twilight Princess!
Not to me. I felt like it gave him attitude and added to his character since he was different than the other mascots. Kinda like how samus was a girl instead of a guy but not to the same level.
Besides, it may not play as big a role now but it would have played a much bigger role if he was right handed from the start. SNES would have several subtle differences if he were right handed.
w/e
Agreed.
Furthermore, I wouldn't mind waiting a bit for
Skyward Sword... Fixing glitches would be a major plus, especially if they could be potentially cause the game to crash or become
Unwinnable by Mistake.
I don't know...I think this would be a good opportunity to make right-handed players see how it feels left-handed players have to frequently adjust to a right-hand-oriented playstyle. I'm under the assumption that the majority of Wii games cater to right-handed players and force left-handed players to adjust (excluding the ones that cater to both right and left hand dexterities), because otherwise we wouldn't even be having this discussion regarding the dexterity needed for
Skyward Sword. And if Link isn't featured with both dexterities available as options, then one side of players is going to have a lessened sensation of "feeling as if the player is Link" anyway, and it appears that it's going to be the lefties.