Scripts from the cronie package have permissions changed after installation, in the recipe files as if follows:
chmod 600 ${D}${sysconfdir}/crontab
chmod 600 ${D}${sysconfdir}/anacrontab
chmod 600 ${D}${sysconfdir}/cron.hourly/0anacron
chmod 600 ${D}${sysconfdir}/cron.d/0hourly
This makes the scripts ignorable to run-parts as they can't be executed.
Check permissions of the above mentioned scripts in recipe file as well as on target