You would normally match the gain/SPL between sub and L/R using the gain knob on the Sub, to get an aprox. flat frequency response to the best possible with manual adjustment.Wouldn't a high power high sensitivity system create more dB per volt? How would the ultra know and compensate for that?
I'm probably asking a dumb question.
If you are then using any form of room EQ, that should do the last bit of evening out the frequency response by matching to the target curve. (ignoring room effects)
After that, then any volume control should adjust both the L/R and Sub output by the same dB adjustment. FR should therefore remain flat (or conforming to target curve if using EQ) regardless of the level.