Ah yes, /usr/sbin/update-ca-certificates is deleting the ca-
certificates.crt shortly before atomically moving the new version into
place.

It looks like a fic was committed in debian for this a couple of weeks ago: 
 
 
https://salsa.debian.org/debian/ca-certificates/-/commit/8f8f4a525bd6a6c8a8d13530cda194d60275313d

but has not landed there.

** Bug watch added: Debian Bug tracker #920348
   https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=920348

** Also affects: ca-certificates (Debian) via
   https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=920348
   Importance: Unknown
       Status: Unknown

** Changed in: ca-certificates (Ubuntu)
       Status: New => Confirmed

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https://bugs.launchpad.net/bugs/1914839

Title:
  package upgrade should replace /etc/ssl/certs/ca-certificates.crt
  atomically

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