I think you mean you have vents on low slant of roof (under overhang) and on high slant of roof. Yes, that is what is commonly used. If a coop is not insulated and all cracks not caulked it will pull in plenty of fresh air from around doors and corners to move the stale, moisture ridden air in coop up into the air flow between vents that will push it out. This is draft free, the only fast moving air is up six inches from roof moving from low to high end.
Unless you have a bunch of spare old widows laying around I'd not go through the effort of putting windows on all sides. South side will solar heat your coop, half your window if open is still glass. One window should provide enough intake air to vent out top of coop to keep it near same temp as outside. Two windows for cross venting would be better if your in the south, east and west walls. For that matter if your in the south attaching styro rigid insulation to the roof would be best. This will stop the solar heating from roof, just a mylar coated 1/2 inch would do wonders. Mylar side facing roof to reflect the heat.