I believe he is speaking of the Throttle Position Sensor, which is what monitors the position of the main throttle plates, not the sub throttle plates (or the 'flies' as we like to call them).
As far as adjustment.... it will lean or enrich the mixture by 'fooling' the ECU into thinking the throttle is open further or less far than it really is. Not all that huge a deal IMO as long as it is not moved too far. The fact that the OP's bike ran hotter is not a good sign though. But as far as 'us' moving it, as long as it is done with a reasonable understand of what we are doing and the results monitored (as the OP did) I would not shy away from tinkering with it.
Of course if one does not know what it does and what changes moving it will or may have then yes, one is simply mucking about and should probably leave well enough alone. It is unlikely a monkey with a screwdriver will happen to adjust a complex machine into a better state of tune.
I believe Kawasaki sets the position sensor based entirely on voltage output, not anything having to do with actual mixture control or monitoring. I believe those sensors are installed long before the engine is ever started and locked down into place. Just like the fuel map is installed into the ECU without the engine ever being tested for the real results of using that map on that particular engine. It is all a matter of 'close enough' and almost always IS close enough but often times could be somewhat improved given time and a better adjusting / results observation.
Brian
Are you talking about the subthrottle sensor? I think it's adjusted via voltage measurements, isn't it? There's big bold print in the manual that says don't muck with it as it has been precisely adjusted at the factory from the same nitwits that adjusted my headlights. No good can come from DIY adjustment, methinks, unless you have the same equipment that Kwak had at the factory or it just comes pre-adjusted.
I think we had a thread where someone went to a dealership to get some work done and a well meaning tech 'tried' to adjust it and the bike got worse. Voltage is .62 to 4.14vdc from closed to fully open. Probably some magic and dancing that you should do when 'adjusting' this.