Removing the last uncertainties, the related Debian bug being fixed fixed it in 
sysv init.
That now has:
 LOCKFILE=/run/lock/ntpdate

It has so e.g. in Artful.

And thereby we considered being fixed as well after merging that.
But versions >= that also have the systemd wrapper which doesn't lock at all.

Need to check Zesty if that might have no systemd wrapper yet but fixed 
sysv-init only.
...
Yep as I thought it really was fixed in Zesty by not (yet) having the systemd 
wrapper.

** Also affects: ntp (Ubuntu Artful)
   Importance: Undecided
       Status: Confirmed

** Also affects: ntp (Ubuntu Zesty)
   Importance: Undecided
       Status: New

** Changed in: ntp (Ubuntu Zesty)
       Status: New => Fix Released

** Changed in: ntp (Ubuntu Artful)
   Importance: Undecided => Critical

** Changed in: ntp (Ubuntu Xenial)
   Importance: Undecided => High

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https://bugs.launchpad.net/bugs/1706818

Title:
  mismatched file locking since 1:4.2.8p4+dfsg-3ubuntu1 causes race
  leaving ntp dead on reboot

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