Send the ECM (one on the driver side of the block) to be repaired.
Then take the alternator have it bench tested for diode ripple. It should be below 0.05 (50mV AC) anything above .1 is a fail.
There is a thread here where the alternator just wiped out the VP44...
http://forum.mopar1973man.com/index.php?/topic/10463-vp-died-last-night/