Missing Junk Mail Folder?

[till]

-rwx------ 1 vmail vmail 43 2010-08-11 05:16 courierimapacl
drwx------ 2 vmail vmail 4096 2010-08-11 06:53 courierimapkeywords
-rw-r--r-- 1 vmail vmail 254763 2011-07-23 12:10 courierimapuiddb
drwx------ 2 vmail vmail 397312 2011-07-23 12:10 cur
drwx------ 2 vmail vmail 385024 2011-12-19 09:19 new
drwx------ 2 vmail vmail 4096 2011-12-19 09:19 tmp

Thats all fine.

Can I just delete the folder as root and then try recreating it from within the IMAP account?

yes.

[FeraTechInc]

That seems to have worked. We'll have to see. I can now see the Junk folder after it's been recreated. What a strange issue...