Investigating further, it appears this issue is in GNOME:

$ gnome-session-quit

** (gnome-session-quit:16622): WARNING **: Failed to call logout: The
name org.gnome.SessionManager was not provided by any .service files


** Package changed: unity (Ubuntu) => gnome-session (Ubuntu)

** Changed in: gnome-session (Ubuntu)
   Importance: Undecided => High

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https://bugs.launchpad.net/bugs/1254350

Title:
  "Shut down" in unity-2d-panel does not work after upgrade

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