Policykit seems to be working, at least this:

frohro@frohro-e6410:/media/bbfa3b46-995f-4d3f-bf61-ccbe04cfc84f/home/frohro/.config/autostart$
 pkexec echo "test"
==== AUTHENTICATING FOR org.freedesktop.policykit.exec ===
Authentication is needed to run `/bin/echo' as the super user
Multiple identities can be used for authentication:
 1.  Rob Frohne,,, (frohro)
 2.  Rob Frohne,,, (frohro)
Choose identity to authenticate as (1-2): 2
Password: 
==== AUTHENTICATION COMPLETE ===
test

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https://bugs.launchpad.net/bugs/1240336

Title:
  Not authorized to perform operation....

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