It may be that you are not shutting Limewire down properly. Sometimes, depending on your settings in options, Limewire will not actually close when you think you close it, but will remain in the system tray, possibly running until all transfers are complete.
I am assuming you use windows which is something, as a mac user, I'm not quite sure about, so am a bit vague about exact closing procedures. I know the procedures for Mac and Windows vary.
If you are sure you are closing LW completely, then you may have a virus. see
http://www.gnutellaforums.com/showth...threadid=41432