mtldesigns's post in Boxed out exterior wall for windows - Looking for help to resolve some issues was marked as the answer
Have your tried putting a shed room over this bump out? It will have its own roof plane. I wouldn't pull the wall down either, let it ride free. When you set a roof plane, right above the windows (as you mentioned), the walls will come down on their own.
BTW, cannot open that path. But that's ok, I don't need the file.