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These Lemon Blueberry Cottage Cheese Muffins are made with whole grain oats and contain a boost of protein for a healthy snack. Mix up the recipe using your favorite muffin flavors!

Cottage cheese muffin cut in half, exposing the inside.

After falling for my Cottage Cheese Pancakes, I knew more cottage cheese recipes would be in my future.

A muffin lover to my core, I decided to try my hand at a recipe for cottage cheese muffins. 

And you guys… This high protein muffin recipe is a winner!

Why make muffins with cottage cheese?

Cottage cheese adds protein, moisture, and tanginess to baked goods, which I consider to be wins all around.

If you’ve been following along for a while, you may have noticed I often use oats instead of flour to bake muffin recipes. My Double Chocolate Pumpkin Muffins and my Cranberry Orange Muffins are two of my favorites! 

There are a number of reasons why I replace all-purpose flour with oats in baking recipes.

First and foremost, oats are a whole grain and I’m a big fan of keeping whole grains in my diet for a slow-burning carbohydrate source.

Secondly, I love the flavor and texture oats bring to baked goods! There is a natural nuttiness and with the right combination of ingredients, oats generate a fluffy texture. 

And lastly, I know many of my followers (myself included) either follow a gluten free diet, or minimize the amount of wheat they consume.

So long as you use certified gluten-free oats in these cottage cheese muffins, they are naturally gluten free!

I love how simple these blueberry cottage cheese muffins are to prepare, as everything gets tossed into a blender (with the exception of the blueberries). That’s right, the dry ingredients and the wet ingredients all get tossed in.

Cottage cheese blueberry muffins, ready to be served.

Because both the cottage cheese and the oats need to be blended, I determined making the batter in the blender is a great way of minimizing prep time and cleanup.

Use this as a base recipe for all kinds of muffins. I go with blueberry lemon, but all sorts of flavor combinations work here!

Let’s discuss the wholesome ingredients for this moist and delicious cottage cheese muffin recipe.

Ingredients For Cottage Cheese Muffins:

Cottage Cheese: The main ingredient that adds protein, moisture and a slight tangy flavor to the muffins. Use any fat content you like. I use 2%

Quick Oats: Taking the place of all-purpose flour, we need oats to serve as the base for the muffins. I use quick oats, but old fashioned oats or rolled oats work too. Instant oats and quick oats yield a lighter texture.

For gluten free cottage cheese muffins, use certified gluten-free oats. I use gluten-free sprouted oats.

Eggs: A couple of eggs help the batter rise so that the muffins are nice and fluffy. I haven’t tested the recipe using an egg replacer, so please drop a comment below if you try it with a replacement for eggs.

Granulated Sweetener of Choice: Sweeten the muffins using any kind of granulated sweetener. Cane sugar, brown sugar, maple sugar, coconut sugar, and sugar-free sweetener are all great options.

Avocado Oil: We need some fat to ensure the muffins are nice and moist. I like using avocado oil because it is a good source of omega-3 healthy fats and has a neutral flavor. Olive oil or melted coconut oil works here too.

Pure Vanilla Extract: A splash of vanilla extract brings warm flavor to baked goods for a cozy vibe.

Muffins on a backdrop with blueberries all around and a fresh lemon sliced in half.

This is the base recipe for cottage cheese muffins, and now we get to customize it with various flavors.

Optional Additions:

Blueberry Lemon Muffins: 1 cup of fresh blueberries and 2 teaspoons of lemon zest (as seen in this recipe).

Chocolate Chip Muffins: ½ cup to 1 cup of chocolate chips

Cranberry Orange Muffins: ½ to ⅔ cup dried cranberries and 1 tablespoon orange zest

Strawberry Muffins: 1 cup finely chopped strawberries and 2 teaspoons lemon zest or orange zest 

Banana Nut Muffins: Reduce the amount of cottage cheese to ½ cup and add ½ cup mashed banana with ⅔ cup of chopped walnuts or pecans.

Cinnamon Raisin: ½ to ⅔ cup of raisins and 2 teaspoons of ground cinnamon

Apple Cinnamon: 1 chopped apple and 2 teaspoons ground cinnamon

Higher Protein: Add 5 tablespoons of your favorite protein powder.

Recipe Customizations:

  • Make a double batch if you have two muffin tins.
  • Replace the granulated sweetener with 2/3 cup pure maple syrup and add another 1/2 cup of oats.
  • Use sour cream, Greek yogurt, or ricotta cheese in place of the cottage cheese.
  • Replace the oats with 2 cups of oat flour or gluten-free all-purpose flour.
  • ​Use sugar-free sweetener such as monk fruit sweetener if you follow a low-carb diet.

Now that we’re experts on the basic ingredients, let’s bake a batch of muffins!

How to Make Cottage Cheese Muffins:

Preheat the oven to 350 degrees Fahrenheit and line a muffin tray with muffin liners.

Add all of the ingredients for the cottage cheese muffins to a blender and blend on a low speed or medium speed until the ingredients are completely combined and the batter looks relatively smooth.

Ingredients for cottage cheese muffins in a blender.

You may need to stop the blender once or twice to scrape the sides using a rubber spatula to help it along. Feel free to use a food processor instead of a blender for this task if you’d like.

Use a rubber spatula to stir in any additions you like, such as blueberries, chocolate chips, lemon zest, orange zest, chopped walnuts or pecans, etc. I add 1 cup of fresh blueberries and the zest of 1 lemon.

Blender full of muffin batter with blueberries and lemon zest on top, ready to be mixed in.

Pour the muffin batter into the prepared muffin pan, filling the muffin holes ⅔ of the way full with batter. If you’d like, sprinkle the tops of the muffins with extra blueberries.

Muffin batter in a muffin tin, ready to go into the oven.

Bake on the center rack of the preheated oven for 18-22 minutes, or until the muffins are fully cooked and golden brown around the edges.

Muffin tray with cottage cheese muffins, fresh out of the oven.

Muffins are best when they reach an internal temperature of 190 degrees Fahrenheit or higher. Insert a digital thermometer into the center of a muffin to check for doneness. 

Allow the muffins to cool completely before removing them from the tray and unwrapping one to eat. Unwrapping muffins while they are still fresh out of the oven causes much of the muffin to stick to the muffin paper.

The muffins taste even better the next day when the flavors have had more time to develop.

How to Store Muffins:

  1. Room Temperature: Store cottage cheese muffins in an airtight container or in a zip lock bag on the counter for up to 3 days.
  2. Refrigerator: Refrigerate in an airtight container for up to 5 days.
  3. Freezer: Transfer any remaining muffins to a large zip lock bag and freeze for up to 3 months.

For those of you who enjoy a mindful treat, these whole grain cottage cheese muffins are a great option!

Each muffin contains 7 grams of protein. Enjoy one or two alongside another protein source such as Greek yogurt or more cottage cheese for a quick breakfast. The rest of the nutrition information is available in the recipe card below!

Make them for grab and go breakfasts, healthy snacks, or even dessert.

Blueberry muffins on a backdrop with fresh blueberries and a lemon in the background.

If you’re looking for more healthy muffin recipes, also try out these reader favorites!

More Healthy Muffin Recipes:

Enjoy these cottage cheese blueberry muffins the next time you’re craving a sweet treat!

Blueberry Cottage Cheese Muffins

4.89 from 9 votes
By Julia Mueller
Prep: 15 minutes
Cook: 20 minutes
Total: 35 minutes
Servings: 12 Muffins
Use this easy recipe as a blank canvas for all sorts of muffin flavors! I use 1 cup of blueberries and 2 teaspoons of lemon zest for lemon blueberry muffins but read the post above for more options. These healthy whole grain muffins come with a boost of protein and taste great too!
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Ingredients 

Optional Additions:

  • 1 cup add-ins such as fresh blueberries or chocolate chips
  • 2 tsp lemon zest or orange zest
  • 5 Tbsp protein powder of choice

Instructions 

  • Preheat the oven to 350 degrees Fahrenheit and line a muffin tray with muffin liners.
  • Add all of the ingredients for the cottage cheese muffins to a high-speed blender and blend on a low speed or medium speed until the ingredients are completely combined and the batter looks relatively smooth. You may need to stop the blender once or twice to scrape the sides using a rubber spatula to help it along. Feel free to use a food processor instead of a blender for this task if you’d like.
  • Use a rubber spatula to stir in any additions you like, such as blueberries, chocolate chips, lemon zest, orange zest, chopped walnuts or pecans, etc. I add 1 cup of fresh blueberries and the zest of 1 lemon.
  • Pour the muffin batter into the prepared muffin pan, filling the muffin holes ⅔ of the way full with batter. If you’d like, sprinkle the tops of the muffins with extra blueberries.
  • Bake on the center rack of the preheated oven for 18-22 minutes, or until the muffins are fully cooked and golden brown around the edges.
  • Muffins are best when they reach an internal temperature of 190 degrees Fahrenheit or higher. Insert a digital thermometer into the center of a muffin to check for doneness.
  • Allow the muffins to cool completely before removing them from the tray and unwrapping one to eat. Unwrapping muffins while they are still fresh out of the oven causes much of the muffin to stick to the muffin paper.

Notes

*Use coconut sugar, maple sugar, cane sugar, brown sugar, or sugar-free sweetener

Nutrition

Serving: 1Muffin (of 12), Calories: 209kcal, Carbohydrates: 26g, Protein: 7g, Fat: 9g, Saturated Fat: 1g, Polyunsaturated Fat: 1g, Monounsaturated Fat: 5g, Cholesterol: 36mg, Sodium: 245mg, Fiber: 3g, Sugar: 11g

Nutrition information is automatically calculated, so should only be used as an approximation.

Like this recipe? Rate and comment below!

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Meet the Author

Julia Mueller

Julia Mueller is a cookbook author, recipe developer and owner of TheRoastedRoot.net. She shares quick and easy recipes for all occasions, from nutritious weeknight meals to holiday recipes. Dinner recipes, side dishes, desserts, appetizers, and more, can all be found on her website. Go to Julia's about page to learn more about her.

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4.89 from 9 votes

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19 Comments

  1. Janet T says:

    I would like to use the protein powder you recommend. I’m wondering if the vanilla flavor overpowers the taste of the other ingredients. This has been my experience with pro powders. No matter what flavors are in the recipe the taste is vanilla protein powder. Would you say that this powder doesn’t do that? And what do you think of the unflavored option? No matter the answer to this question I WILL be making these muffins. They look like exactly what I’ve been looking for. Thank you!

    1. Julia Mueller says:

      Hi Janet! This is a great question! I have found flavored protein powders to be overpowering in baked goods too, so I typically use unflavored unsweetened protein powders, like straight egg white protein or goat whey protein. I find I don’t taste anything at all with unflavored egg white protein, and goat whey protein adds a slight creamy flavor which I think is nice. Let me know if you have any other questions!

  2. Nicola Doria says:

    Turned out beautifully, used sugar substitut, followed directions and they are great!
    Wish I could post pic!

    1. Julia Mueller says:

      Incredible! I’m thrilled to hear you enjoyed the recipe, Nicola! I wish my website had an option to share a photo too…that would be so cool!

  3. Rachel F says:

    These turned out fantastic! I did one batch where I blended everything in the food processor at the same time and one batch where I pre-ground the oats in my magic bullet before adding to the food processor. The second was obviously a little smoother. I also swapped maple syrup for the sugar in the second batch. But frankly both were delicious. I also made a plain version for my son who is anti-blueberries and he loved them! Hit with the kids! I may also try a half sweet version because I feel like they could handle it. Overall, LOVE having such a great base to build options off of. Thank you!

    1. Julia Mueller says:

      Aww, my pleasure, Rachel! I’m thrilled to hear your family enjoys the muffins! I appreciate you sharing your experience – this is super helpful to others who want to try the recipe! 🙂

  4. Laurie Miller says:

    I used “Coaches’ Oats” and did not put in a blender; I just mixed by hand. They didn’t rise much but they taste fantastic!
    I call them “mookies” because they are between muffins and cookies. They fall apart easily and they’re very moist. Yum!!

    1. Julia Mueller says:

      I’m happy you enjoy them, Laurie! Thank you for sharing!

  5. Tina says:

    These are so great! They fit my macros and I love how the flavors come together. You’re right about the cottage cheese adding such a cool flavor! Love the lemon zest here too…really makes an amazing muffin!

    1. Julia Mueller says:

      YES! Mission accomplished! I feel like they’re the perfect muffins too…lots of great nutrition packed into each bite!

  6. Allison says:

    I liked these! I did the blueberry variation and enjoyed the taste and texture, which is a little different than a muffin made of wheat flour. Mine didn’t really rise though, so if I tried this again I might consider some tweaks to get some more lift, though maybe that is just the nature of this muffin. I added some of the lemon juice when I was adding the zest, so maybe that did something to the baking powder reaction. Baking is chemistry! Regardless, they were good and I will undoubtedly make them again.

    1. Julia Mueller says:

      Thanks so much for sharing, Allison! I was wondering the same about helping them rise more. I’m wondering if whipping the egg whites would help? Or using a little baking soda. Nevertheless, I’m happy you enjoy them.

  7. Vittoria says:

    These were great! I had a hard time blending everything together so next time I’ll pre-blend the oats into flour first and then blend the wet ingredients separately before combining the two. I also used frozen blueberries and just poked them into the muffins (frozen still) before baking! Worked great!

    1. Julia Mueller says:

      Sounds great, Vittoria! I should have specified in the recipe that a newer/high-powered blender is required. Some older blenders have a difficult time blending batters and the way the jar is shaped makes removing the batter from the blender difficult. I appreciate you sharing your experience!

  8. KATIE says:

    I used a protein enhanced gluten free oatmeal which uped the grams of protein a bit. Loved the texture of these muffins too! Lemon zest added was a delightful hint of lemon.

    1. Julia Mueller says:

      Amazing! Thanks so much for sharing, katie!

  9. Gina says:

    Looks delicious ?

  10. Brittany Chaney says:

    If your blending the blueberries, as seen in the photos, how is your batter not blue??

    1. Julia Mueller says:

      Hi Brittany! You don’t blend the blueberries 🙂 As mentioned in the instructions, the blueberries get mixed into the batter using a rubber spatula (wooden spoon works too). Let me know if you have any other questions! Happy baking!