The fact is that it's really easy to use. As you said, PT-1210 already does the analyzing. No need to do it separately. And still don't see the advantage of it.
I still don't understand your problem. Move modules from where? You don't need to move them or copy them anywhere. Just CD to the dir with the modules you want and invoke PT-1210. If it is in your path, it will read them.
Amiga configs don't make any difference unless we're talking about 1.x floppy setups. Those don't work.