In a small bowl, combine the flour, cocoa, baking soda and salt. In a large bowl, use an electric mixer to beat together sugars, butter, and vanilla. Add the eggs, one at a time. Then gradually stir in the flour/cocoa mixture. Fold in the chocolate chunks and Reese's Peanut Butter Chips. If you want, save a few chips and chunks for sprinkling on the tops of the cookies.