Okay, I used a yellow circle to point out where the blaster bolt is in this one. As you can see, it's nearly invisible and looks kind of weird in game:
It's a little easier to see what I'm talking about with the crossbow:
It's like the alpha or glow textures aren't being applied. I've never had this problem playing on any of the much older machines I've used JK on.
My MotS CD has a nice crack in it so I don't know how it works right now.