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Timing must always be set before messing with the carb. If you are in doubt, talk to the builder of the engine for timing settings. And just because you have total timing set, if the resulting base idle timing isn't right then you could be feeding advance into your idle. Trying to tune a carb with that going on is futile. So once you get the timing sorted out, then you can tune on the carb.
There could be a few things going on with your fan issue. You don't say what fan or alternator you are running or how its wired but it is possible that you have a fan that demands a lot of amps and the alternator isn't up to it. I would confirm that the fan is going through a relay and make sure you have a solid power source with a big 12V+ wire for that relay. You could also have a bad ground on the fan circuit. Might be worth taking the car to a parts store as-is and having them check the alternator and battery and see what their charging diagnostic equipment shows when the fan kicks on.
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