Fixed it for ya
Aaron, my Yukon has both under and over the fire air like yours. I suppose that you will get the best advice from someone who has the same model furnace, but for me, I find that leaving the fire have at
least a small amount (1/2 to 1 turn?) of air from under (ash drawer) at all times gives a cleaner burn. I would think you would want to control the
burn rate with the upper control more so. But like others have said, you'll hafta play with it to find the best results from your particular install.
Getting a manometer to check your draft makes it easier to set your flue damper for best results. I have bought (2) Dwyer Mark II (model 25) manometers now, off fleabay for $20 or less delivered to my door. I have mine mounted on the wall next to the furnace, hooked up all the time. As others have said, a baro will give you the smoothest most controlled draft, but a manual damper and a manometer are effective too. A lot of people will say heck with the manometer, but I like to be able to see for a
fact what the wind and temperature are doing to my chimney and how my damper adjustments are affecting things, but I'm a tool hound too, so...