I'm nearly out of ideas with troubleshooting this issue so I figured I run it past the braintrust here before I spend any more money.
Problem: Rough idle and missing once warm. Starts right up and idles fine when cold. High idle when coming to a stop that can be brought to normal by giving it a fist full of throttle with the rear brake engaged. (all symptoms pointing to lean idle correct?). No issues getting up to speed or missing when on the throttle.
Background: This is a barn find that I'm nearly finished bringing back to life. Everything appears to be working with the exception of this idle issue. This entire scooter was recently torn apart including the entire engine. The bike was fitted with a Malossi 218cc kit. Carburetor was completely gone over with new jets installed but I did not touch the auto choke. Valve clearances have been checked and double checked. I've removed the SAS system with a block-off plate and the evap canister. I've installed a brand new intake manifold and checked everything for vacuum leaks. No amount of adjustment on the fuel mixture screw seems to make a difference.
Next steps: Remove carburetor and remove the auto choke mechanism to clean and check operation. Remove the 38 idle jet and replace with a 40 (anyone know where I can find a 42 or larger idle jet for the Keihin?).
The symptoms in my mind are pointing to a lean idle mixture that is compensated for when the auto choke is open. I just don't understand why giving it a fist full of fuel would bring the idle down and stay there? I'm also at elevation (6500 feet) which is why I'm hesitant to start richening anything because usually I have to go much much leaner on jetting compared to the rest of the world.
Any ideas are greatly appreciated.