I am with Michael, using all 8 frame mediums for everything.
Back in the 1980s, I used deeps for brood boxes and shallows for honey supers. (the books I read then said mediums were on their way out, ha ha!)
Using ALL the same size equipment just makes it so much easier to mix and match. You can take a frame from the honey box and put it down in the brood chamber to beef up stores for the winter and not have to worry if it fits or not. Likewise, you can move honey frames to help start a nuc (and I do have a 5 frame medium nuc--they are available.) And as some one pointed out earlier, since you are ordering all the same size equipment, you can buy in bulk easier and get a slightly better price.
I've seen people use nothing but deeps for both brood box and honey (mostly commercial types), but the weight is a consideration. Now that I am a 60 yr. old female, moving the 8 frame mediums is a lot easier, especially if they are full of honey.
As to using a queen excluder on the bottom, I've heard of some people doing it "temporarily" when hiving a new swarm or package to make sure the girls take the time to get used to their new digs and don't immediately abscond. But here we are just talking a matter of a few days at most.