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This is still happening in Ubuntu 21.10, and the installer interface is very confusing.
I wanted to create an Ubuntu installer on an external drive, so I connected the Ubuntu 21.10 live USB to one port, and an USB SSD to another port.
When installing, I made sure to choose /dev/sdc (the usb ssd drive) as my target external device both for installing my system and for installing the bootloader (an explicit option in the modern installer).
In the end, ubuntu installed its uefi files on my internal nvme drive efi partition, making both my system and the external usb ssd non bootable.
My 2c:
this is serious. But if it can't be solved because it's too hard... just don't let the user select their bootloader device, and issue a "BIG FAT WARNING: YOUR MAIN EFI PARTITION - /dev/nvme0p1n1 - will be modified!" message. Then I can choose what to do.
I would expect such behaviour from Windows. Not from Ubuntu.