I released a new version of PhatHack Media Manager just now, with a new DMS utility 'Repair DMS Databases'.
Before running it, you may want to remove your TTS announcement files from PHTDTA\TTS to stop the program from importing the TTS announcements as media.
To run:
Select your DMS in the device list, select 'DMS Utilities', 'Repair DMS Databases'
In the first dropdown select 'Rapir with Import'
In the second dropown select how you want your playlists to be generated (Album, Artist, Genre, Year)
Click on Rebuild.
I've done as much as I can to test this process, so if there are problems you may want to just start again - or we can try and work out went wrong.