Curious the Annotations plugin doesn't suffer from it.
I thought it had gone away.
It's maybe something that gets corrupt in the Kobo as it's not every book, but once it happens it only goes away when a fresh version is annotated.
Too early this morning, it was 4am approx and I thought I was maybe posting this in the wrong place.
The kobo & Calibre files are gone now, replaced by a new edit of the eBook (less than 3 hrs which is good for me).
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