These cottage cheese muffins are doing the most—in the best way. Whole wheat flour, eggs, chocolate chips, 2 cups (!) grated carrot blended to the batter with some cottage cheese. They’re ridiculously easy, packed with feel-good ingredients, and ready to be your go-to for breakfast, as a snack with substance, a satisfying dessert, or for meal prep magic!

Three carrot and cottage cheese muffins with chocolate chips on top sitting on a countertop. The muffins are in paper liners and are surrounded by a few chocolate chips and a ribbon of peeled carrot.

Are we still riding the cottage cheese wave? Absolutely. It’s a whole vibe. Normally, I’m all about enjoy my cottage cheese in a bowl with veggies or adding it to my eggs (hello, fluffiness and extra protein!), but these cottage cheese muffins have stolen the spotlight and quickly become a new house favorite.

Of course, these aren’t your run-of-the-mill muffins. As the reigning queen of veggie-loaded baking, I couldn’t resist adding in some veggies. These beauties pack in 2 cups of grated carrots and 1 cup of blended cottage cheese. Once blended up with eggs, oil, a little brown sugar, and cinnamon, we pour everything into a bowl (for easy mixing) and add in some whole wheat flour, ground flax, and a sprinkle of mini chocolate chips. Into the oven they go, and just like that, cottage cheese magic happens.

Even my cottage cheese-skeptical family is fully on board with these muffins. They’re flavor, moist, and perfectly fluffy. I enjoy them as a snack, as a feel-good dessert, or part of breakfast—especially paired with a yogurt bowl or alongside those fluffy eggs I mentioned before.

All ingredients for chocolate chip and carrot cottage cheese muffins sitting together on countertop prior to baking.

Let’s make these muffins together. Just you and me….

Grated carrot, eggs, cottage cheese, oil, brown sugar, and vanilla are sitting in a blender on a countertop prior to blending.
To a blender, add the grated carrot, eggs, cottage cheese, oil, brown sugar, and vanilla. Blend until smooth.
Grated carrot, eggs, cottage cheese, oil, brown sugar, and vanilla all blended together and in a bowl. Baking powder, baking soda, and cinnamon are on top of the blended mixture prior to mixing. The bowl is sitting on a countertop.
Transfer the contents of the blender into a medium-sized mixing bowl. Then add the baking powder, baking soda, and cinnamon to the bowl…
Baking powder, baking soda, and cinnamon are being whisked into a blended mixture of grated carrot, eggs, cottage cheese, oil, brown sugar, and vanilla. The ingredients are in a glass bowl sitting on a countertop.
…and whisk everything together.
Ground flax, whole wheat flour, and chocolate chips are being mixed into remaining blended and mixed ingredients for chocolate chip and carrot cottage cheese muffins. The ingredients are being stirred by hand using a rubber spatula in a glass bowl on a countertop.
Add ground flax, whole wheat flour and chocolate chips. Stir until the dry ingredients are just incorporated into the rest of the batter.
One hand is using a cookie scoop to fill paper liners sitting in a 12-muffin muffin tin. The other hand is holding the muffin tin. Surrounding the muffin tin on the  countertop is a bowl filled with muffin batter.
Divide the batter into the 11 prepared muffin cups.
Cooked chocolate chip and carrot cottage cheese muffins in paper liners in a muffin pan. One muffin is missing from the pan. A pair of hands is using pot holders to grab the muffin pan from the countertop.
Bake!
A few chocolate chip carrot and cottage cheese muffins sitting on a cooling rack on a countertop. The muffins are in paper liners and the muffin in the foreground is split open (into two halves) and is surrounded by a few chocolate chips and a ribbon of peeled carrot on the countertop. A white bowl filled with a white ingredient is also sitting on the cooling rack.
4.97 from 54 votes

Chocolate Chip Carrot Cottage Cheese Muffins

Yield: 11 muffins
Prep Time: 10 minutes
Cook Time: 18 minutes
Cuisine: American
Course: Breakfast
These cottage cheese muffins are doing the most—in the best way. 2 cups of grated carrot, whole wheat flour, eggs, chocolate chips, and (obviously) blended cottage cheese. They’re ridiculously easy, packed with feel-good ingredients, and ready to be your go-to for breakfast, as a snack with substance, a satisfying dessert, or for meal prep magic!

Ingredients
 

  • 2 cups (192 g) grated carrot, Do not squeeze moisture out.
  • 2 large (2 large) eggs
  • ¼ cup (59.15 ml) avocado oil
  • 1 cup (210 g) cottage cheese, either low fat or full fat. Fat free has too much added water.
  • cup (73.33 g) packed light brown sugar
  • 2 teaspoons (8 g) vanilla
  • 1 teaspoon (4 g) baking powder
  • ½ teaspoon (2 g) baking soda
  • 2 teaspoons (4 g) ground cinnamon
  • cup (45 g) ground flax
  • cups (150 g) whole wheat flour
  • cup (60 g) chocolate chips

Instructions
 

  •  Heat the oven to 375℉. Line 11 compartments of a standard muffin tin with paper liners or grease with oil spray.
  • Since this muffin recipe uses less added oil than most traditional muffin recipes, I find that silicone liners or disposable liners with a natural food-grade silicone coating (I like If You Care baking cup liners) work best to prevent sticking. If using traditional paper liners without a coating, lightly spray them with cooking spray before filling so the muffins release more easily after cooling.
  • Add the grated carrot, eggs, cottage cheese, oil, brown sugar, and vanilla to a blender. Blend until all the ingredients are combined and very smooth. Carrots should be completely pureed.
  •  Pour the contents of the blender into a medium mixing bowl. Add the baking powder, baking soda, and cinnamon to the bowl and whisk into the carrot mixture.
  • Add the ground flax, whole wheat flour and chocolate chips to the bowl.  Stir until the dry ingredients are just incorporated into the batter. Careful not to over mix!
  • Use a 1/4 cup measuring cup or scoop to divide the batter into the 11 prepared muffin cups and top each one with a few more chocolate chips, if you’d like.
  •  Bake until the tops are lightly golden brown and the muffins have an internal temperature of 200℉, about 18-20 minutes.
  •  Allow muffins to cool completely then enjoy or store in an airtight container at room temperature for a day then refrigerate for 4 to 5 days. Muffins can be individually wrapped then frozen for up to 2 months.
Serving: 1muffin, Calories: 209kcal, Carbohydrates: 25g, Protein: 7g, Fat: 10g, Saturated Fat: 2g, Polyunsaturated Fat: 2g, Monounsaturated Fat: 4g, Trans Fat: 0.004g, Cholesterol: 35mg, Sodium: 204mg, Potassium: 221mg, Fiber: 4g, Sugar: 12g, Vitamin A: 3948IU, Vitamin C: 1mg, Calcium: 77mg, Iron: 1mg
Nutritional information provided here is only an estimate shared for convenience and as a courtesy. Information will vary based on ingredients + brands used to create the recipe.