Just how are you importing these books? And from what source? It sounds as if you are trying to import >3,000 books from an internet site using an OPDS connection. I've played with a couple of calibre plugins to read an external OPDS library (steinarb's opds-reader and un-pogaz's OPDS-reader which was forked from the steinarb code).
The maximum OPDS connection on calibre is related to the calibre server and does have any effect on the local book import or the imports I tested using either of the two plugins.
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