Can you expand on this thought? Do you mean calibrate one sub then the 2nd, then both together?
From 'Sound Reproduction': "It remains a perplexing dilemma that there are no truly reliable technical standards for control room sound, making the reference a moving target."
In any domestic living space where you might find speakers, the boundaries of the room determine a varying transition frequency at which low bass frequencies stop being resonant, and become directional - Bouncing all over the room until they run out of energy.
Most of us do not have a simple rectangular 'shoe box' room in which we can easily calculate the couple of room modes that will be excited at low frequency. Conversely, the listening position could also be centered in a room node, absent of specific sounds. In either case, part of the solution can come from placement, where inches make a difference, various types of absorption, or, employing multiple subwoofers to either balance the sound seat to seat, or to work together to cancel-out a room mode.
But without measurements, you are stabbing in the dark. Level matching the subs does not solve anything if you do not know what might be missing. And it is that narrow perspective, that causes most auto-eq programs to fall short of actually solving problems. In recognizing that, it appears
@Floyd Toole and his successors Dr. Sean Olive and Todd Welti have helped Harman create a new DSP process that actually accounts for this and minimizes seat to seat variation.
Since this technology is in its infancy and limited in availability, REW and an Omni Mic will have to suffice for room set up. But the knowledge is transferable!