mod_perl-2 should be getting the ap[ru] config script's name/location from httpd (ie apxs). Like apreq, modperl's apr ABI is subordinate to httpd, so asking apxs for the name of the ap[ru] script it used is IMO the safest solution.
apxs (in httpd-2.0 HEAD) already has the logic to handle the new apr-config naming. -- justin