While I do enjoy both, as they provide lucrative amounts of pleasure for me (The Legend of Zelda is my favourite video game series).
I would have to say that overall I prefer the 3D titles as they feel more immersive in my opinion.
There are things that both top down and 3D Zelda's do better over one another, however, 3D is my overall favourite.

3D.

Both equally.

Love them both.

Usually I would prefer 3D games, but when it comes to games like Zelda and Pokemon I would prefer them staying top down. To be honest, looking at top down pixel game is better than looking at a game with really bad graphics and animations (like in the 3D Zeldas)

I got into Zelda on lot so 3d for. But then only top down I played was Alba which is pretty good too.

I like both, but the NES and SNES entries are what locked the series in for me so I loved GBC, GBA, and 3DS going back to that style. I am happy we have both.

Originally started with 2D and like the 3D series as well, I;m honestly on the fence with both.

Definitely have more fond memories of the 2D series, Oracle of Ages/Seasons in particular when I first came across the GBA SP during my vacation in Orlando Florida, probably my favourite Zelda games I love going back to now and then along with MC.

I like top-down Zelda's more since the only 3D one I enjoy is Majora's Mask.

Top-down 3D-Zelda - I just liked ALBW much better than anything since ALttP