Not sure of your thinking there. The engine is running on the ballast relay all the time, anyway?
Or do you mean "bypass" the relay, rather than activate it?
Anyway, if you've measured the voltage at the coil with the fans running and it shows a substantial voltage drop when the fans are running, then that could possibly be the reason for the drop in revs. But it could also be the fans' current draw causing load on the alternator that is dropping the revs; more strain on the engine, thus the revs drop.
Find out which is causing the drop in revs, then you can devise a solution.
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