While I know it is probably bad form to run multiple copies as people would do this to try and submit more queries to musicbrainz, I would like one copy to be doing lookups and cleanups, while the other copy was loading some folder structures to compare and look for duplicates to delete.
Is it possible to run two copies of jaikoz at the same time?
No because there is only one database, and Jaikoz protects against two copies of Jaikoz running against it concurrently.