I don't see how it would be a problem unless you reassigned it while caps lock was enabled, in which case you would have to reboot (or temporarily revert your remap) to turn it off.
I can think of precious little software that actually requires caps lock for anything, and otherwise for normal typist tasks you can just use shift. I never use caps lock for anything, personally. (Ditto with num lock. My keyboard has a full number pad and a full set of arrow/insert keys. There is no reason for my number pad to ever not be a number pad.)