Mike, we've got ducks, geese, guinea's, peafowl and chickens. All told, around 140 birds or so.
If you want your fowl to nest inside the house, then by all means raise the young (or release them) in there. About half of our's go into the coop at night, and the other half roost above it in the trees. The coop guinea's were raised by hand and then released into the coop, the others are a bit more wild.
We have not had any issues with the tree guinea's, we just want to thin down a bit.
You might want to consider picking up a few chicken hens to augment your guinea's; there's nothing like having your own fresh eggs!
Scott