I know this thread is old, but it saved my life. I spent a lot of time trying to figure out what was causing this bug, and it was the Type 3 clothing. I was using the dirty business suit in a female character and every time I loaded my save the pipboy and aiming would be off position. I saved it with other clothing (The sheriff duster), exited the game, loaded my save back, and the problem was gone. Apparently it only happens when you load a save with certain clothing.