Ok, this is interesting. :) I removed all SA installations, except for the one under /usr/local/perl-5.8.8. I moved my sa-update-keys directory to /usr/local/perl-5.8.8/etc/mail/spamassassin. I modified my nightly script to use /usr/local/perl-5.8.8/bin/sa-update. I ran my nightly script.
Now it has re-downloaded all of my sare rules and so forth to /usr/local/perl-5.8.8/var/spamassassin/3.001007/ When I run amavisd debug-sa, it now finds all the rules that were just downloaded to the above location. I presume I can get rid of the now useless and never used copies that are under /var/lib/spamassassin/... I'm not used to seeing everything under the perl install though ... -- -ste