before you pull the carbs, try to run the bike without the airfilter insert. This shoud have almost the same effect than running with pods.
If you wan't to change the needle clip position, 2nd groove from top is the stock setup, so you have to set the needle in the top groove.
By the way, you can change the clip position while the carbs are still installed. You must remove the tank, then you can work on top of the carbs.
good luck!