Ours is kind of a conglomerate; however, our state regs somewhat impede how we'd like to have it set up. In Delaware, everyone has to have the 18 required PD hours annually. However, they are limited as to what's offered & accepted. For example: our owner has to take the same offerings as our teaching staff. Our CACFP coordinator: same. Our resource & referral admin: same. It gets very frustrating when you try to set up as such.
We're going through the NAEYC accreditation process, and it has the option for a business admin & a pedagogy admin; however, our state doesn't allow for delineation. Your admin is your admin & you can't have two.
In all of that, I'd say find out what works well (I think our conglomerate does for us), establish clear boundaries, job responsibilities, set up chain of contact/command, etc., and fix it when/however you need to.