Well, there's some light at the end of the tunnel.
Last night I put the settings back to the calibration, and checked out Underworld, Fifth Element, and Ratatouille, all on BD. And all looked a little dark, but not near as objectionable as Transformers and the others I looked at during the calibration. I kept thinking back on how incredibly dark POTC:AWE looked, but I guess the simple fact that these 3 other movies looked fine to me, means that POTC:AWE is just an incredibly dark movie. My wife commented that she remembered the movie being hella dark when we saw it in the theater. She said, "That's why I fell asleep."
So I've got the settings back to the calibration for now, and we'll see how it goes. While watching Underworld, some scenes did seem a tad dark, but I swore I was seeing detail I hadn't seen before. But that could just be because I'm watching on an LCD now instead of a CRT RP.
But why the hell would the director, (POTC) want to make his movie so incredibly dark that you can't see anything?!?!? It doesn't make sense.