I saw it in 3D at the Tropicana site (large screen digital). I was able to tell that it should have been brighter, but it wasn't something I was conscious of constantly. I thought 3D helped the movie, but less than I would have expected. I would have preferred a more "classic Superman" plot for a franchise reboot. In particular, it's bad for Lois to start out absolutely certain of his secret identity.
Agree on the movie, my 15 year old son and I really liked it, but saw it in 2D IMAX which was an option for the first showing of the day at my local Regal multiplex. Did not miss the 3D at all although the price was the same as it was for other 3D IMAX showings. First time I have seen the choice in IMAX and I am curious why they seem to be experimenting with the concept. I guess it at least shows they are still tweaking the model which it probably a good thing.