Definitely replace that master cylinder, any leaks there result in no brakes.
On the fan wiring, is it still per the schematic diagram on post #112? Is it blowing those 40A fuses when turned on with the switch, or is it just not running repeatably when you flip the switch on/off? If it's the latter, first thing to check is the wiring & grounds - may have a loose intermittent connection somewhere, or its also possible the relay contacts may be going bad (carbon arcing). If it is blowing that 40A fuse, you've got a short circuit to find.
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