Following up on the webex, please try the steps below to clean up your

1. Unconfigure the docbase using MTS configuration program.
2. Uninstall MTS
3. Remove the remaining Documentum products from Add/Remove Programs.
4. Delete the following folders and all contents:
C:\Documentum
C:\Program Files\Documentum
5. Delete the Documentum entries from registry.
6. Reboot the MTS machine to make sure everything is clean.
7. Back up your custom profiles
8. Log in to DA as an admin user.
9. Delete the Media Server folder, located in: \System (select all children and all versions when prompted during delete)
10. Navigate to \System\Applications
11. Delete the CTSTransformRequest, MediaProfile, and Transformation folders if present
(including all versions and sub folders).
12. Navigate to the System\Modules\TBO folder
13. Delete all of the following folders (if present):
• dm_cts_response
• dm_media_profile
• dm_transform_request
• dmc_cts_reporting_config
• dmc_cts_request_archiving
14. Navigate to the System\Modules\SBO folder and:
• Delete all of the folders that start with "com.documentum.services.cts...";
• Delete all of the folders that start with "com.documentum.services.dam...".
15. Run the following two DQL statements against the docbase, in this order:
DQL> delete cts_instance_info object
DQL> drop type cts_instance_info

Restart docbase. Install MTS 6.5 SP3, install 2 DAR files, and then configure MTS against this docbase again to see if it fix your issue.