DO NOT use the command line option for resetting MDB. Always use the PI SMT plugin to reset MDB. The command line was the only way for the beta releases but for the final release, command line option is not recommended. This is because the user privileges that AFLink subsystem runs under when using a command line option may not be the same as the user privileges that the AFLink subsystem runs as a service.
There are no externally supported command line arguments for the MDB-AF Migration Wizard.
If anyone has further questions, I'm going to suggest that you contact tech support as they are best equipped to answer these types of questions.
Thank you for this answer! It is true this should have been asked to tech support.