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Some plugins like Reading List and Find Duplicates use the marked field to sort while displaying the results. That is how for example Reading List is able to sort its lists.
I don't know whether the Reading List plugin restores the sort to its original values after it is done.
The Find Duplicates restores the sort field when it is done. However it only restores one field (calibre has multisort). The next version (likely releases this week) restores the whole sort history.
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