Updater stuck at 99% (whonix didn't finish update and blocked updater)

Continuing the discussion from [R4.2] whonix-gw-16 update failed:

I’m not sure if it’s related, but for me the updater is stuck at 100% on the whonix-ws. So I’m not sure if it’s a whonix bug or an updater one. It kind of feels like an updater one just because a faulty template should be handled gracefully by the updater. Anyone experiencing this?

This was from a freshly installed Qubes 4.2 rc1.

After restarting (with a new dom0 update) this was solved. So I’ll consider this as fixed for now, but I’ll keep an eye on future update failures.

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Personally, I met the same phenomenon when I wanna update a whonix-ws-16 restored from R4.1 to R4.2. I had to manually edit the files under /etc/apt/sources.list.d/ to enable R4.2 repos. The updater stuck at 99% because the apt wanna override that repo file with a newer one (provided by a package), and there’s no way to confirm or refuse it, or even to know confirmation was needed.

However, I’m doubt if your case is the same as mine.

This is a rare case ( only happens when user manually edit repo files ), but I hope the updater be able to handle this.