Matt, last year I replaced both Hitachi alternators with Balmar 100A and included their ARS-5 controllers. This required extensive and complete new cable runs to support 100A ea., upgrading the isolators and bypassing the stock breakers to upgraded BlueSea 100A breakers as well.
It meant detailing the DC charging system to the Nth degree.
Point being there was no external control on the alternators as you describe save the breakers. I know it