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Okay, I have a sneaking suspicion I know what may be going on.
Could it be that the reason why the numbers are out of sync was because that is the way they were loaded into Calibre? For example, in the main calibre window, if a book was loaded in this order
1 - Book 5
2 - Book 3
3 - Book 1
Would the 'Sort by Author' order then become
[The Hollows Book 5]
[The Hollows Book 3]
[The Hollows Book 1]
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