Preheat oven according to directions on cookie package.
Prepare cookie dough according to recipe or package directions. Press cookie dough into a greased muffin tin to form a cup. Bake for 7 minutes.
Remove tray from oven when cups are rising. Take a small spoon and deflate the centers of the cups while leaving the sides of the cookie cup untouched. Put back in the oven and bake for another 5 minutes.
Again, remove from oven and with a small spoon, deflate the centers of the cups while leaving the sides of the cookie cup untouched. Add a four to five peanut butter chips to each cookie cup.
Place back in the oven again and finish baking until the cookie cups are golden brown. Remove from oven and let cool completely.
In a mixing bowl, beat with a mixer the cream cheese, powdered sugar and peanut butter together until light and fluffy.
Place cream cheese mixture into a piping bag and pipe the mixture into the cooled cookie cups with a decorative tip. Top with remaining peanut butter chips.