it shouldn't, and why would mv not handle things the same way finder does? if anything mv does a better job with files with weird permissions, vs. Finder spitting out the generic "some files cannot be copied" message.
Well, there are some possible issues with the like the resource fork and that stuff that I think HFS+ is still using. Plus some things that look like files in the Finder are of course really directories with tons of files in them.
I *think* I remember reading that some of the regular Unix commands won't preserve all the extra resource stuff always the way the Finder will. I'm not 100% positive on that though, and even still that doesn't explain why it didn't successfully at least copy the file itself!
Have you tried repairing disk permissions, doing any kind of maintenance stuff like that? (I think I remember that you already have, but just in case).
I really can't understand why the mv command would do anything weird like that. Especially not when you're just moving it to a different location on the same disk! I mean maybe if it were a removable disk and you unplugged it before the file actually got written (like it wasn't flushed out to the disk or something?), but that makes no sense here.
I use the command line quite a bit to move stuff, navigate, etc., and I've never seen anything weird like that. I really don't get it

It's bugging me that we can't figure this out!