Preheat oven to 350 degrees F.
Combine flours, cocoa powder, baking soda, baking powder, and salt in a medium bowl.
Beat together butter, sugar, brown sugar, and vanilla until creamy. Add in egg and beat well.
Gradually beat in flour mixture. Blend until well combined.
Stir in dark chocolate chips.
Drop rounded tablespoons of dough onto a cookie sheet.
Press 2-3 chocolate chunks into the top of each cookie.
Bake for 8-10 minutes or until cookies are set.
Cool on the baking sheet for 3-5 minutes, then remove them and transfer cookies to a wire rack to completely cool.