I'm going to take a wild guess that something(s) that should have been manually configured to execute have been missed. I don't run gnome and have only briefly played with NetBSD, but a quick check could be done fairly easily:
$ echo -n > /tmp/stuff ; for x in `pkg_info | awk '{print $1}'`
> do
> pkg_info -D $x >> /tmp/stuff
> done
$ less /tmp/stuff