Confirmed on our setup as well. SSSD works fine, but every time a
graphical utility (software center, network manager) asks for root
privileges, the prompts requests a local user's credentials.

As suggested by some users, adding the ldap user to "admin" group fixes the 
problem.
sudo adduser <ldap-user> admin

This, of course, is just a workaround.

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https://bugs.launchpad.net/bugs/892680

Title:
  PAM with LDAP breaks authentication to Policykit enabled  Gnome
  applications using LDAP credentials

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