You should only replace what is bad, you don't need to use the whole patch panel.
You should have the doors and fenders off to replace them correctly.
If the foot well and inner cab corner are not rusted I wouldn't cut them out. If you go by the theory cut them out to back the other to but weld well then you will have to cut a hole in the new rocker and cab corner to put a backer in to but weld the foot well, and inner cab corner etc.