Some of this also has to do with design specifications. These engines are built to run witb a 90 *C + water temp. The fuel is optimized for that.
The cooling systems are incredibly efficient. The fact that a stock cooling system can handle 200 horsepower, and cooling a turbo, is testament to that.
Counter-intuitively, increasing flow can decrease cooling efficiency. That is why removing the thermostat doesn't help. My Formula SAE team experimented with controlling temperature of a GSXR600 engine with an electric water pump and our ECU, rather than the thermostat. We had constant overheating problems, even running the pump constantly. Put the thermostat back in, and use the electric pump normally, and no significant problems (other than a failed pump, and a driver forgetting to turn it on :eek2:).
In terms of doable modifications, the first one I can think of for slow speed, traffic temperature control would be to set a switch to reverse the fan. That way it blows out, instead of into the bike. Wouldn't work at speed, though.
Better ducting could be investigated.
Rear mounted radiators would be feasible. Also increases water capacity.
http://www.cumminspower.com/www/literature/applicationmanuals/t-030_p93-115.pdf