I believe the best way to measure LF response is to measure both left and right speakers playing at the same time. The reason we measure a room's bass response is to know how things will sound at the listener's ears. In most pop music the bass and kick drum are panned to the center, meaning it comes from the left and right speakers equally. So from my perspective, at bass frequencies anyway, measuring a room with both speakers active more closely emulates how real music will be played. That said, I think it's good to also measure each speaker separately for additional confirmation.
As for those nulls, this is a very tiny room! At some point you'll have as many traps as you can possibly fit, and then all you can do is get back to mixing. I'm sure it sounds much better than before you had any traps, yes?
--Ethan
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