The point of a port isn't for air to escape.
That said, I think you were right about the big surround heavy MMS X series just not performing well 50hz and up. That's sort of what you get when you have a low Q woofer and tune it at 30hz.
I also don't believe an extra 3-4" of port area is going to be the silver bullet here. The weak link is the sub, which simply isn't designed for anything outside of whale songs, and the position of the box in the truck. Central located box is always a problem. In fact I'd go as far as to say if OP just throws more subs into that location he may continue to be disappointed. For something to test, he should try his current box in a back corner and experiment with facing the sub and port different directions and get a feel for how that changes the sound.
This box we did in my brother's f250 is 3 cube net and works fairly well in this location. I have no doubt that without the seats and pushed all the away to the back wall it would perform better.