It happened at the part just before the leap down off the ledge to where you enter the crusher flow.
The AR bobs and troopers teleport in and start going after each other, but nobody's weapon works. The sound works, but no damage is dealt. My weapon makes sound, but no projectiles are animated, and no damage occurs. Changing weapons doesn't affect anything.
This happened again after I made it through the crusher and got the troopers to come after me. The good admiral is flattened and now I'm surrounded by troopers shooting at me but doing no damage. I punch and punch and punch and they just laugh at me.
They're laughing at me, Chris. Laughing, I say!! :-)