I had an Explorer UL with a 2QZQ mod and did like it but I personally prefer the bottom entry. My current setup is still completely stock and I think I may leave it that way, if anything I will change out the suspension.
I am really liking the bottom entry these days, for me the ease of entry is fantastic and I have to agree with everyone else about keeping the bugs out as well. I do admit that adding a small zipper just to be able to reach out the side would be nice though. However, I have no intention of modding this one, I simply enjoy the simplicity of the bottom entry.