Yes! You can freeze M&M cookies before baking or after baking. Freeze the dough balls with the toppings pushed into the tops of the balls as desired either individually wrapped, in a freezer bag, or airtight container for up to 3 months. Bake immediately after removing the balls from the freezer, but note that the cookies will likely take an extra few minutes to bake. You can freeze the cookies after they have fully cooled individually wrapped, in a freezer bag, or an airtight container for up to 5 months. Allow the cookies to come to room temperature, heat in the microwave, or heat in the stove to thaw.