Perhaps I am just a nostalgic fool, but I just can't see a 3D remake that would work. I remember playing TLoZ when it first came out, and I was so amazed at how the game felt. The mechanics, the theme, and the design all came together to create a game that seemed much more epic, and engrossing, than nearly any other game one the NES at the time. When the second installment, The Adventure of Link, came out, I was so eager to have another game like the first that I just couldn't stand the second. To this day, I have beaten TLoZ perhaps 10 times; yet, I haven't picked up the second since I first beat it. When A Link to the Past came out, it, too, had the same "magic" as the first. It is another game that I have played, and beaten, numerous times. So, when OoT came out, I kind of had the same feeling as with TAoL. Despite being relatively similar in theme, the mechanics introduced with a 3-D environment, and the somewhat empty nature of the fields (which some people actually prefer over the 2-D styling), just seemed like such a letdown. Now, when I got into playing it, I finally ended up liking it, and I have since played and beaten all of the 3-D installments (although I still prefer the original, and A Link to the Past).
In any case, preferences aside, I think that the 3-D versions, and the 2-D version have such an overall disparity in feel and mechanics, that, aside from characters, they almost seem like two different franchises (but not quite). To transmute 2-D to 3-D would lead, in my opinion, to a game that feels so fundamentally different, that the intended purpose is lost. I am not saying that 3-D doesn't work with the franchise, since I have enjoyed those offerings. It is just, as a strict remake, I don't think it will work. As other have suggested, you might as well start from scratch since, for the most part, the game will no longer seem enough like the original to really have the intended effect. To sum it up, I just don't think that the elements that made the original such a great game will translate, and what you will be left with will be too different. You will either have to add, or subtract too much from the game to get it to work, and thus, it really wouldn't be a remake.
I even wonder if the 2-D styled build of OoT could have worked.