For archive purposes, why not attach a RAR file as an additional format, and then store any Archive versions within the RAR file. That way you can have Calibre keep the archived version with the current book entry, and it is easy to get things out of the archive by double-clicking it when required. Not a perfect solution but definitely workable.
If you do not want to pay for a RAR license then use something like 7-Zip instead. Avoid storing any archive files as a ZIP file as this can get confused with the way Calibre handles HTML files.
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