Preheat the oven to 400°F. Spray a muffin pan with nonstick cooking spray or line with paper liners.
Grate the zucchini and set aside.
In a medium bowl, combine flour, cocoa, baking soda, baking powder, and salt.
In a large bowl, mix together sugars, oil, eggs, and vanilla. Add flour mixture.
Mix with a handheld mixer or whisk until a cake-like batter is formed.
Use paper towel to pat the zucchini dry and squeeze out excess moisture. Mix into the muffin batter.
Fold in chocolate chips.
Use a large muffin scoop to divide the batter evenly into 12 muffin cups.
Bake in the oven at 400°F for 5 minutes, then reduce temperature to 350°F and bake for an additional 15 minutes.