Lets see if I get this corectly, you startthe bike with the choke pulled out, you ride off =all is fine- at some point you push the choke in, still okay, keep on riding. You stop,and shut down. Come back 5 minutes later, and without pulling out the choke, you have trouble restarting. You then pull it out a notch and she starts fine..are you sure you're on the rich side generally since the choke is an enrichening circuit and your situation would make more sense if you were running a litttle lean...
Oh, what was the temp etc ...cause over 45 degrees you probably shouldn't need a choke at startup, or otherwise. (I think thatsa bout the temp where I don't touch the choke).
And about the changing idle speed, hopefully you set it when the bike as at operating temp, cause the choke seems to increase the idle speed, so when warmed up and no choke, your idle speed migh get a bit slow.
NOW, some one who actually knows about this stuff, please jump in.