I had similar problems, only to later realize that I closed my computer on one end before it finished syncing. Also some older dropbox clients was a bit buggy.

I had similar problems, only to later realize that I closed my computer on one end before it finished syncing. Also some older dropbox clients was a bit buggy. I haven't had this problem for more than a year now. Using it across Linux, windows and Mac clients, even stored Virtual machine instances on dropbox and loaded them from virtual-box on all machines.