When saving your changes to the spam data, DA will check to ensure ownership is correct on all emails/folders. For E-Mail accounts, this is added as a cronjob. However, the main account was left within the "directadmin" process. As a result, if the folder: /home/user/Maildir was oversized with thousands+ of emails, this would likely cause a timeout. The solution was to skip the check on the files below this path, since if it exists, it's likely already set correctly.