This is the Fix that Zimbra Gave us today and it worked great. Thanks! Zimbra!!!
zmprov gmi
user@domain.com
You will get this result:
zmprov gmi
user@domain.com
mailboxId: ####
quotaUsed: ######
This will give you the mailboxId.
Next go to the index directory:
cd /opt/zimbra/index/0/{mailboxId}/index/0
For Example:
/opt/zimbra/index/0/1244/index/0
And delete the contents of the above directory.
Then you can run the indexing command through the command line:
zmprov rim
user@domain.com start.