69 Valiant Charging Concern

You say "fan" what fan, heater, AC, engine cooling? You likely have it hooked to the incorrect side of the ammeter to get a proper reading.

What you need to do is (if temporary) monitor BATTERY voltage and see what that is doing

Flexlite cooling fan on relay (high cfm), my secondary fuse box running all my accessories minus the amp is coming from a free (key switched) tab on the factory fuse panel. Does this mean I should power this prior to the battery side and where is a good location. My multimeter fried the other day so I can’t monitor to see what the battery is doing on or off throttle, that’s a good starting point. Will do this and check back. I mean the reg seams to be working, if I leave that cooling fan on for good period of time, it will drain the battery