I just wanted to give a reply to this post, since it seems to be an exact description of my own bike! This was how my bike behaved. Mine had pods and had not been rejetted, and the symptoms was inconsistent idling, and stuttering and stopping after 15 to 20 mins ride. I could not figure out what was going on. After some investigation and reading on this forum, I figured out that it was running lean. I then decided that going with the stock airbox would be the smartest move, all taken into consideration. This is ordered from Ebay now.
The bike came with velocity stacks when I bought it. I decided to try to put them back on while I was waiting for the airbox to arrive here in Norway, just to see if it would make any difference. And it does! The bike already behaves so much better. The idling problem is gone. The stuttering and stalling after 15 mins run seems to be gone, even if it feels a little lean still. This is strange, since the stacks probably are as open as pods. I wonder if it has to do with the velocity stacks feeding the air in a consistent way, which makes for less turbulence in the carbs, and a more evenly pull of fuel through the jets.
Anyway, I am pretty sure it is related to the pods.
Good luck!