The wood all over is my vote.
One question...we had "pergo" about 15 years ago. I would NOT install it again, although I hear it's much better now. The reason why is:
1. It doesn't "feel" the same as wood floors - it's just not as absorbing on the feet and legs.
2. It doesn't "sound" the same as wood - it just sounded weird, if you can imagine that
3. It never looked like wood flooring - it looked like fake wood flooring and was uber-slippery.
I'm sure what you are considering is not like that, but if there is any way to get into a "real" house that has it installed and see what it's like - I'd try it.
And tell DH that his idea of defining a room is great, but the flooring will provide the "consistency" they need. Just like with a quilt...you want some variance, and then you need some consistency...the floors are ideal to keep the same. You can then change wall color and change the furniture placement. Also, the kitchen and bath have the advantage of cabinets, hardware, etc, that can really change up how they look.