Update overwrites user config file /usr/local/etc/xpdfrc. Should use xpdfrc.sample instead as many other packages does.
A commit references this bug: Author: cy Date: Fri Sep 18 05:16:37 UTC 2015 New revision: 397216 URL: https://svnweb.freebsd.org/changeset/ports/397216 Log: Don't overwrite etc/xpdfrc, use @sample instead. PR: 203187 Changes: head/graphics/xpdf/Makefile head/graphics/xpdf/files/patch-Makefile.in head/graphics/xpdf/pkg-plist
Fixed.
(In reply to Cy Schubert from comment #2) xpdf-3.04_6 creates xpdfrc.sample, but upgrade still overwrites xpdfrc.
Try it again. The old xpdfrc was deleted by the old package when it was removed. The new package will not do this. Make a change to xpdfrc remove it and reinstall. You will see it works.