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The alternator is ECU controlled. Pin 3 is +12v battery. Pin 1 and 2 are how the ECU controls charging voltage and monitors charging voltage (GEN-MON and GEN-COM). Pin 2 is the PWM signal and is needed for the alt to charge. Pin 1 is the monitor circuit and isn't needed.

Do you have the ability to provide PWM signal to the alternator? If not, it won't work.

More info:
 
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