When you say upper body does that mean your doing ALL your upper body on those days (bis,tris, chest, shoulders, and back)? Hopefully I'm just reading too much into it as that wouldn't be very effective. Let us know more specifically what muscles you are doing each day and maybe the exercises so we can give you some feedback.

Taking the protein shake right after working out is very important, so your doing that part right. Do you use a simple carb like dextrose (corn sugar) or malodextrin in your shakes? If not you should start doing so as it will replenish the glycogen lost during workouts and help the protein absorption. The ratio should be 2g carbs to 1g protein in the PWO shake. Dextrose is really cheap since its just corn sugar so you definately should consider it, not to mention it will sweeten up your shakes.