You are totally thinking correctly on all of your talking points...
However - while I have seen about 3 different programs that claim to work, I usually find that the SID information has been hosed in some way after using them... So I don't know of any "working" programs that let ya do it.
I will however keep my ear to the preverbial grind stone and see what I come up with... I've also pinged a buddy at MS to see if he has anything or knows of anything.
Are you Folding for a cure? Why not? Its easy, free, and doesn't hurt anyone - in fact it can only help!