Preheat the oven to 350 degrees F. Line a cupcake tin with liners.
In a bowl, whisk together the flour, baking soda, cinnamon, salt, and nutmeg.
In a large bowl, whisk together the pumpkin, brown sugar, yogurt, and oil. Once smooth and combined, whisk in each egg one at a time. Whisk in the vanilla extract.
Add the dry ingredients to the wet, mixing until combined and no large lumps remain.
Fill the cupcake liners ¾ of the way full. Bake for 28 to 32 minutes, or until a tester inserted in the center comes out clean.
Cool the cupcakes completely. Frost with the coffee cream cheese frosting.
Beat the cream cheese and butter together until creamy. Beat in the powdered sugar and espresso powder until combined. Beat in the vanilla extract. Frost the cooled cupcakes!
Serve and enjoy!