I have this issue to on i686. It is only present in jack2 1.9.8-2 and disappears when I downgrade to 1.9.8-1. Here are the changes packaging changes between those two:
https://projects.archlinux.org/svntogit/community.git/commit/trunk?h=packages/jack2&id=527cea46dba1fbdf677681027b5ea5ae9d4c8514
Jackd remains verbose however when I manually move 40-hpet-permissions.rules to its old location.