I think it's certainly possible, though hard to say for sure. It makes sense considering the neck is attached and anchored much further up on the neck than usual which in theory would add stiffness and stability. I think neck construction and the way it attaches to the body has an effect. I find B strings typically respond differently on neck through instruments than bolt-on; not necessarily better but different. More often than not I prefer B strings on neck through. But, as a whole, I prefer the response from the rest of the strings on bolt on instruments.
i don't think there's a verifiable "better" here.
i do think that the extra mass near the b string on a single cut helps create more resonant surface than the double cuts.
not scientific at all. i have a number of neck-through double-cut aj6s and two headless bolt-on single-cut 6s with single-piece bodies.

) Closer to the time I might shoot them an email regarding your suggestion but figured I'd put some feelers out here first!