Problem solved. It turns out I was only using the "Find a Video File to Import From Your Computer' option, and wasn't using the 'Import Content from DVD' option under Add Content in DivX Author, hence it wasn't able to see/use all of the VOBS. Now it seems like it's able to do something with all of these parts.
Yeah it wasn't 92059059 files, that was just hyperbole because I was frustrated.
Does anyone know if there is an option in DVDFab 5 Platinum to rip to a single video file instead of parts? It's odd/annoying that these programs insist on making parts when they rip..