I always kind of liked it. It was kind of a shame they left it out of The Wind Waker. They never did it in the 2D games, though, and I never minded its absence there. :/ I don't expect that it's going anywhere, though, especially considering the fact that we're unlikely to see another strictly 2D Zelda game (I say strictly because I think we'll still get 2D gameplay like Phantom Hourgalss and Spirit Tracks).
I suspect the reason you didn't mind its absence in the 2D games is because none of the 2D games had the kind of cinematic presentation that the 3D games have. One of the things that's cool about having the boss name and title appear on the screen when the battle starts is it adds to the presentation. The buildup is done and the boss has appeared, and seeing the name and the bad*** title adds to that. Some of the 2D games could benefit from it, but they still don't really have the cinematic presentation to really need it. Especially games like Legend of Zelda, where the boss doesn't even have its own music, and A Link to the Past where it may have its own music but it still only appears without any kind of introduction (well, with a few exceptions).
As for me, yeah, I'd like to see it again. Like Caleb I missed it a lot in The Wind Waker, because it felt less epic and also because I felt far less informed about what was going on. I even missed it in Twilight Princess because the titles were only ever one word different. The titles in a way helped anchor the boss to the area. If gave you an explanation, however brief, of what the boss was and why it was there. If Nintendo wants to omit it, then I think they should actually expand on that, and try to build up an atmosphere of mystery and tension with the dungeons, bosses, and the game in general. That could be cool, and that would be one way I think taking out the name and title could actually benefit the game. As of right now, though, no Zelda games do that so it's good as-is I think. I doubt Skyward Sword will deviate from that, the epic presentation of the series.