I would try to take off the shiny metal part of the air filter, and run it open, so that the air turbulence inside the empty air filter covers is not generated.
Some times air turbulence can mess the carb air flow in. May be it is just a Amen Savior frame thing.
My brother had the same thing happening with his 650 Amen ( he ran the rectangular air box from Amen. Solution was additional foam inside the air box.
My Amen with RC big block with KZ1000 carbs also using the same rectangular air box as my brother used no air filter, I had to shorten the the metal mesh 1/2 inch to tune it in.
Presently running the same air filters ,but mine have the foam filters with covers being meshed.