You can cut the fuel on a diesel rabbit by turning the key off, the mechanical fuel pump has a solenoid valve, a single wire going to the valve, that is the only thing that keeps the engine running is the fuel getting to the pump.
As for the alternator, a smaller alternator isn't going to make much of a change other then the stock alternator an electrical load is an electrical load, spinning the two alternators without a load should be about the same drag, so spinning them with the same amount of load should be about the same.
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