Did you change the apparmor profile to be in enforcing mode? By default
it's in complain mode as far as I can see:

lrwxrwxrwx 1 root root 16 Jun 19 20:48 /etc/apparmor.d/force-
complain/usr.sbin.sssd -> ../usr.sbin.sssd

That being said, I can see at least one more missing rule, this time for the 
chown capability:
[ 1690.540498] audit: type=1400 audit(1497905549.525:43): apparmor="ALLOWED" 
operation="capable" profile="/usr/sbin/sssd" pid=9946 comm="sssd" capability=0  
capname="chown"

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https://bugs.launchpad.net/bugs/1689387

Title:
  SSSD Prevented from Notifying Systemd on Startup by Apparmor

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