When Reader Library is reinstalled you won't see any of your books in the software until they are re-imported. Do you know where you kept copies of all of your old books? They should still be there in your Time Machine backup to restore. I would try the folder Documents > My Books > Reader Library from a backup dated before the reinstall. Also if you were using an older version of Reader Library, then books used to be stored in a folder something like eBook Library.
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