Rewiring Car, Alternator Connection questions..

I have 4 terminals on the wiring side, but only 2 terminals on the ballast, so two of the wires aren't connected. I'm installing a Painless harness to fix a lot of the electrical gremlins I have and wanted to eliminate the ballast. I understand what you are saying, and hooking up the MSD makes sense.

There are many non factory splices in the blue field wire, I'm trying to figure those out. It currently has two wires coming off of the ballast, one goes to the coil (MSD box)(14ga br) the other goes through the bulkhead to ignition 1 on the column (14ga br). Prior to the ballast it has a splice that goes to ignition 2 on the column (16ga bl), and the regulator.

So would I be able to run the wire from the alt field to the regulator, with a splice that powers ignition 1, ignition 2 and my MSD trigger?

Edit: A picture makes more sense... This is how it's currently wired.