same here!
first it started with spybot 1.3 - latest detection update.
then i uninstalled it and installed spybot 1.4 - detection update 2005-12-16.
it still takes hours to scan...
i do have the latest version of AntiVir and symantec personal firewall pro 5.5 build 2637.
using all of that on a windows 2000 system, administrator account.
i recently had the latest infection of coolwebsearch...which caused some problems (and maybe still does, although it should be removed entirely). so i don't know if that has to do something with it...