No expert, but try:
sudo yum remove qubes-template-whonix-ws
then
sudo qubes-dom0-update --enablerepo=qubes-templates-community \
qubes-template-whonix-ws
You might have tried this but I had to do the whonix reinstall myself
Source:
https://www.qubes-os.org/doc/templates/
Do you just want a fresh copy of whonix? If so I would recommend deleting the
old copy (qvm-remove) and then installing it again.
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