When Bruce is trying to answer every one's prayers on the computer (in the morning) he gets a cup of coffee. He is typing really fast trying to answer every one's prayers. Then he checks to see how many are left to answer, and when they show where the coffee cup was sitting it's gone!!!
At the end of his rapid typing, he used his right hand to get the coffee then walk off away from the computer. It apparently was either a mistake of placement or intended, by the movie people, to be moved to the right and hidden beside the monitor (or behind according to the camera angle) because of his excitement (moving his hands all around which might knock the cup over) because he replied to all of those emails.