I go with BeardKing on this one.
If the final look you are after is a "one big room" with some privacy walls for the bedrooms and bathrooms inside the outer "shell" then it will work.
You will have thick outer walls, but any builder that has worked with 2 x 6, "super insulated" walls, should feel at home.
From a structural point of view, what you are doing is the same as a simple ranch with a truss roof. Only the outside walsl carry any load and you put the inside walls anywhere you want.
Your outside siding contractor may not have experience working with a horizontal vs. vertical nailing scheme, so talk to him up front. The same for your drywall guy on the outside walls. They both will be used to vertical studs to fasten to.
Go with normal construction inside the shell. It is a lot easier to find stuff that fits together, And the construction guys are used to it and will work faster since they are learning something new on your time.