Stainless is problematic because of its susceptibility to galling. It will just be a matter of time before the fastening system galls fast and you will have one hell of a time getting the nuts off. I does not take much torque at all for stainless nuts to gall on a stainless bolt. It is probably...
It is possible that you are burning rich. Check your flame color it should be light blue. Check that the fuel supply pressure to the burner is per the manufacture specification. Ensure that the heat input to the burner (volume flow rate) in BTU per hr matches the manufacturer spec. ie 38,000...