Petronix ignition question
If it worked good with points and the ballast hooked up to it. If I were you I would leave the ballast and replace the points with the pertronix, thats how mine is set up and it runs great. Just remember to hook your red pertronix wire to the Keyed on 12 vdc side of the ballast.
It sounds though you may have fried your coil.
I just looked at my Pertronix Instructions, you are Figure 3.
I think Figure 2 is like for Chevy HEI coil or something.