Post Script:
I tried thrice now to copy over my Main Library to an empty new library. The first time I tried the whole thing at once; Full Indexing got to like 800 and then the library was corrupted and died.
The second time, I copied over in smaller batches and got all the way to 1800, but maybe got too greedy.
For the third time, I only copied the 1800 from the second try; it already got corrupted after 130.
There seems to be no problem with the books themselves, there is a seemingly random occurence of the fatal error.
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