Preheat oven to 350°F (180°C) and prepare a muffin tin with liners or grease well.
Blend cottage cheese in a blender or food processor until smooth and creamy.
In a large bowl, whisk together blended cottage cheese, eggs, coconut sugar, honey or maple syrup, and oil until fully combined.
Add flour, protein powder, baking powder, baking soda, and salt; gently fold with a spatula until just combined to avoid overmixing.
Stir in milk until mixture is thick and well blended.
Fold in chocolate chips, reserving some to sprinkle on top.
Divide batter evenly into muffin cups, filling each to the top, then sprinkle remaining chocolate chips over them.
Bake for about 30 minutes or until a toothpick inserted in the center comes out clean or with a few moist crumbs.
Allow muffins to cool on a wire rack before serving.