Using Qubes 4.0.3, this has always been an issue for years.
After install I can use Qubes and boot by accessing the entry in the UFEI bios for Qubes (listed with Windows and other Linuxs I use for dev).
After I boot windows and shutdown, next time I go on bios the Qubes entry is gone. Fedora, Ubuntu, Arch… are all still there.
To fix I follow the instructions at UEFI Troubleshooting | Qubes OS and it works. I think I will need to do this after each dom0 kernel update?
Did anyone have a solution for this which didn’t include copying the files as written in the support doc?