Thanks again very much for the participation!
The
link to the other thread and
the open annotation standard were nice resources.
@Changing Epubs direclty
The problem of "how to handle annotations in a changing document" would be solved with this approach. But I understand that it's possibly dangerous. And on the technical side difficult because of the /inserting/ nature (and noted above already).
> A lot of it also gets very complicated when the underlying file itself may change slightly. (Fixing typos, updating code, etc.)
I've never thought of that (probably as I don't let my ebooks being updated. But this might indeed be a hurdle. I could imaging though, that a git-diff approach might solve this rather easily.
Anyway, I guess the conclusion for now is mostly (1) use books or (2) use a reader with a very easy notes-export functionality.