The message won't be removed. It's worded as good as it can be now.

Maintainer scripts using apt-helper to download stuff (or clients using
libapt-pkg) should be fixed to use proper permissions on the directories
so the _apt user can write files (best create a temporary directory I'd
say owned by _apt, download to that).

For interactive use, the message appears in a very limited set of
circumstances. Namely, "download" and "source" run as root (maybe
"changelog", depending on your tmpfs setup, not sure).  Running these
commands as root does not make that much sense anyway, especially
source.

So if users can reproduce this with a specific package that uses our
tools, please add a task for that tool. From the apt side, this is
working as intended.

** Changed in: apt (Ubuntu)
       Status: Confirmed => Fix Released

** Summary changed:

- Needless scary warning: Download is performed unsandboxed as root: _apt user 
not allowed
+ Warning messages about unsandboxed downloads

** Also affects: msttcorefonts (Ubuntu)
   Importance: Undecided
       Status: New

** Also affects: flashplugin-nonfree (Ubuntu)
   Importance: Undecided
       Status: New

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https://bugs.launchpad.net/bugs/1522675

Title:
  Warning messages about unsandboxed downloads

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