PR #183 attempts to fix the Void Linux shutdown problem, but any changes to /etc/runit/1 won't survive an update to the runit-void package.
A better solution is the change the permissions of /etc/runit/stopit in /etc/rc.local, which is sourced during runit stage 2 and can be used to specify configuration to be done prior to login.
I've added the following line to /etc/rc.local to set the permissions for /etc/runit/stopit.
chmod 100 /run/runit/stopit