Thanks to all you guys for the description of the problem and the
suggested fix by changing the boot flag of the preexisting efi
partition. I spent quite some timee trying to fix this, since I thought
i might have done something wrong.

If I understand the problem correctly, Ubuntu has a bug for mor than 6
years, which breaks the system when a user wants two efi partitions to
use dual boot with Windows. This would be the only installation method
that would not be hampered with  interferences by windows updates. And
it is a problem which does not occur with Debian, on which ubuntu is
based on.

This raises the question for me if repairing the ubuntu installation is
the right choice for me. I just want an easy to use system without too
much digging. I really have to think about whether I want to apply this
workaround.

It also makes me a little less furious that Microsoft decided to just
revert any changes on *their* efi partition during updates, when they
notice tempering from other OS, since *other* OS might be a little bit
careless by risking harm not only for their own installation but also
for Windows.

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https://bugs.launchpad.net/bugs/1396379

Title:
  installer uses first EFI system partition found even when directed
  otherwise

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