I see this is six weeks old, so maybe the problem has been solved, one way or another. If not, perhaps the following may be helpful (or not!).
My racecar runs no heater, and doesn't seem to miss that 'major part of the cooling system' even though it runs a standard MX5 radiator. Unless you are using the heater to heat (and therefore cool the coolant passing through it) all it is doing is a) providing more coolant to be a bigger heat sink for the heat generated, and b) circulating said coolant. If your cooling is that marginal that the heater makes a difference, you need to look more closely at the efficiency of your overall cooling system including the radiator and the integrity of the ducting/undertray. Ironically, I am looking at reinstating a heater circuit on the racecar to provide screen demisting via a miniature heater core.
However, when people talk about 'coolant reroute', they generally mean blanking off the MX5 coolant outlet (closest to the radiator), and taking the coolant to the radiator from the rear of the cylinder head. This is where the outlet is in FWD installations of the B6/BP engines, and our MX5s can suffer from overheating in the region of No4 cylinder - especially if they are high power cars - as a result of poor coolant flow in that area. Thus the heater outlet in that location, which takes coolant from this area to the water pump via the heater (regardless of whether the heater is 'heating' or 'cooling') which is what I think TCR is referring to. So, if you blank off that outlet, and the inlet at the water pump, you may have a problem (I will let someone else say for sure whether, and how big, that problem may be). Bottom line, if you blank off the heater,
keep the coolant flowing from the back of the head to the water pump.
Likewise, I have no idea what might be the benefit of circulating coolant through throttle bodies or manifolds, but cold starting will not be one of them. Coolant at or near ambient is no better than ambient, and since there is little on there that is heating significantly the coolant will not be cooling much. Again, my racecar has these all sealed off and does not seem to miss this coolant, but I would be happy to be convinced of the benefits for a road car (intake de-icing?). However, if you don't know what you are doing, or the consequences, probably better to play it safe. If you have blocked them off already, please let us know how you go.
