On one of the courier/qmail/squirrelmail boxes I run for a client, there are several clients with directories that have say between 9,000 - 20,000 emails.. With Maildir writing every email to a file, this makes things intolerably slow for the users.. Beyond converting to mbox, is there a better way to do this? Getting the users to filter out their boxes is unfortunately not an option..
Try using a different filesystem. You are not going to do any better with mboxes. See http://www.courier-mta.org/mbox-vs-maildir/
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