Preheat the oven to 350℉/176℃ and line a muffin tin with liners. Zest the orange and then set aside.
1 tbsp orange zest
In a bowl, add the dry ingredients; flour, cocoa, baking soda, baking powder, cinnamon, nutmeg, cloves, ginger, and salt. Stir to combine and set aside.
1 1/2 cups all-purpose flour, 1/4 cup cocoa powder, 1/2 tsp baking soda, 3/4 tsp baking powder, 1/4 tsp salt, 2 tsps ginger, 1 tsp cinnamon, 1/2 tsp cloves, 1/8 tsp nutmeg
Using a microwave at 15 second intervals or a double boiler method, melt the butter and chocolate together until smooth.
1 1/3 cups semi-sweet chocolate chips, 3/4 cups unsalted butter
Remove from the heat and add in the brown sugar and white sugar. Mix until well combined.
2/3 cups dark brown sugar, 1/2 cup white sugar
Add in the molasses and oil. Continue whisking until smooth.
4 tbsp oil, 4 tbsp molasses
Add in the orange zest, eggs, and vanilla. Whisk for 2-3 minutes or until air bubbles form. This step is crucial as the air introduced into the batter here helps create crackly brownie tops.
3 large eggs, 1 tbsp vanilla, 1 tbsp orange zest
Mix in the dry ingredients just until the flour streaks disappear and a thick, fudgy brownie batter forms. Then mix in the chocolate chips a few times.
3/4 cups semi-sweet chocolate chips
Scoop the batter evenly between the muffin liners. They will be almost full. Sprinkle a couple extra chocolate chips on top.
Bake for 25-35 minutes. If you want fudgier middles, bake for 25-30 minutes. For chewier cups, bake for 30-35 minutes.