I'm sure there is a PCM or ECU, but I doubt that it's in the charging loop.
Alternators are typically internally (like yours in all likelihood) or externally circuited with their own stand alone regulator
, for rather simplistic operation purposes.
Again...replace the Alt if your adjoining connections / wiring are found to be proper.
Your problems will magically go away.
'99 Grand Vitara JLX, 2.5L V-6, 4WD, 5 spd std, '00 "Limited" leather interior.
'03 Honda Odyssey
'72 Chevy Nova. One owner, SB, A/C, power disc/drum & steering.