Stockholm Karting Center in Cokato, MN and Midwest Karting Association in Eau Claire, MN are the 2 tracks up there. No idea about kart shops in the area, you can probably call the tracks and find out. Those two tracks are mostly 206 and World Formula.
Almost all shifters in the midwest are road racing with Championship Enduro Series or street racing with the Southern Indiana Racing Assoc.
Stockholm has a very capable shop. Chris can most likely help you out. I was out there last week (8/11/17) and he was building up a stock moto for a customer. Mark Enderlein at River Lake Racing may also be able to help you out.
You can run a shifter kart at Stockholm in their Outlaw class. There is also an active shifter class in the MAC acutocross series. I just built up an X30 shifter for autocrossing. I do practice days out at Stockholm.