could the intake be holding my low end down?

Exactly.the number 1 reason why guys lose bottom end power with a single plane is the carb is too big. You can usually tune around it, but most guys don't. A dual plane intake will take a bigger carb.

Done correctly, and DP intake loses every time. In both power, driveablity and fuel mileage.
Thank you for saying this. I've always thought that a single plane is just adding to the low RPM issues of a big cam and big carb. You can make one of the 3 smaller and all of a sudden, the low RPM performance starts coming back. That was the point of my 351C story: I had several supposedly 'wrong' parts for low RPM torque: big header tubes, single plane, and big intake ports. But the behavior of the small cam and modest carb and high CR dominated those 'too big' parts at low RPM's. (Which always makes me wonder about the arguments that the intake tract size is too big... but that is another discussion.) Put in all parts that peak out at high RPM's and of course it will be like a peaky 2 stroke engine; nothing, nada, zip down low.