It seems that /var/run/ConsoleKit directory and its database is only
created by console tty log-ins but not the GUI. There was no directory
after GUI Terminal shell started; only after switching to TTY1.

So it would seem this isn't the cause since PCs without ConsoleKit work
fine.

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https://bugs.launchpad.net/bugs/1784964

Title:
  Regression due to CVE-2018-1116 (processes not inheriting user ID or
  groups )

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