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Moist and delicious, these Greek yogurt Protein Muffins will satisfy your sweet tooth without guilt. This protein muffin recipe is quick, easy and so healthy that you’ll be making it every week. It’s oil-free, gluten-free and refined sugar free.

Protein Muffins Recipe
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If you are looking for high protein treats, try my protein banana bread, cottage cheese brownies, protein cheesecake and cottage cheese muffins.

Baking with protein powder is an excellent way to make your favorite desserts healthier, more balanced and macro-friendly. Just replace part of the flour with protein powder and you’ll get delicious protein snacks ready to enjoy. Made at home cheaply, and with simple ingredients.

The story behind this recipe

I just left my job. After months of burnout, I took the decision to prioritize my health. It was 10:41 a.m. when, tired and sick, I finally closed the laptop and said goodbye to a situation that I couldn’t bear any longer. My friend, I honestly can’t describe my feelings in that moment. I was confused, scared of an uncertain future, but also very, very, very happy. Relieved, free, excited. Motivated to work my a** off and live the life of my dreams.

Fueled by a mix of “anger” and commitment, I headed off to the kitchen and dedicated to what I truly love. My blog, creating content and making healthy recipes. That’s how these Greek yogurt protein muffins were born, to remark a huge change in life and especially mindset. Well, let me tell you that the recipe worked better than expected: these are probably one of the BEST macro-friendly desserts I’ve ever baked in my life!

taking pictures of Greek yogurt muffins

Recipe ingredients

This protein muffin recipe is very simple. Made with common ingredients and without oil, it is also great if you don’t have protein powder. Replace it with more flour and you are set to bake! But hey, one step at the time. Let’s now dive into all you need to make high protein muffins at home. And don’t worry if something is missing, in the next section you are going to find a complete list of substitutes.

  • Oat flour. To keep these muffins gluten-free, this recipe uses oat flour. Oat flour is a wholegrain, unrefined alternative that will make your dessert higher in fibers and nutrients.
  • Protein powder. Whenever baking, my recommendation is to prefer vegan protein powder or casein. Unlike whey, they will keep your desserts soft and moist as normal flour. I used vanilla flavored protein powder.
  • Baking powder. This will help the chocolate chip protein muffins rise and get soft.
  • Salt. A hint of salt enhances all the delicious flavors and balances the sweetness level.
  • Chocolate chips. For healthy protein muffins without refined sugars, use dark or extra dark chocolate chips. The higher the cocoa percentage, the more the health benefits.
  • Greek yogurt. To add more protein, this recipe uses Greek yogurt. Both regular or low-fat options are great; the result and calorie content won’t change significantly.
  • Ripe banana. Banana adds natural sweetness and moisture to your oil-free protein muffins. Make sure to opt for a banana that is very ripe. The riper it is, the sweeter and tastier your Greek yogurt muffins.
  • Maple syrup. The maple syrup sweetens this protein dessert in a healthier way, without the need for refined sugars.
  • Egg. Use a large whole egg, preferably from free range chickens, for more nutrients and better taste.
  • Milk. You can use any type of milk, dairy or dairy-free. My recommendations are unsweetened almond milk, soy milk, oat milk and semi-skimmed milk.
  • Vanilla extract. A teaspoon vanilla extract gives the dessert plenty of flavor. Omit if using vanilla protein powder.
ingredients for protein muffins

Replacement options

  • If you don’t have oat flour, prepare your desserts with wholewheat flour, spelt flour or regular all purpose flour. Almond flour will also work, but the texture won’t be exactly the same.
  • To make high protein muffins without protein powder, replace it with more oat flour or almond flour. You are still going to get plenty of high quality protein from the yogurt.
  • Greek yogurt can be replaced with Skyr, quark or with any other thick yogurt of your choice. Also plant based alternatives work, but they must have the same texture of Greek yogurt. Firm and thick rather than smooth and runny.
  • Unsweetened applesauce or pumpkin purée are excellent alternative to banana.
  • You can substitute maple syrup with honey, agave syrup, date syrup or any sugar-free liquid sweetener. Do not use granular sweeteners because they will change the batter consistency.
  • For vegan protein muffins, replace the egg with one flaxseed egg or vegan egg replacements.
Chocolate Chip Protein Muffins

What is the best protein powder for baking?

If you have ever tried baking with protein before, chances are that your dessert was quite dry and rubbery. This happens when you use the wrong protein powder, as not all options as equally good. Some are better than others.

As a general rule, vegan protein powder and casein are the best options because they do not dry out when heated. Say goodbye to dry protein muffins! Conversely, whey protein powder tends to dry out when heated. You can still use it, but the texture won’t as moist.

Speaking of flavor, my recommendation is to prefer simple ones like vanilla, chocolate or unflavored protein powders. Their simplicity will allow you to experience all the flavors without aftertastes.

Greek Yogurt Protein Muffins

How to make protein muffins with Greek yogurt

Step 1 – Combine the wet ingredients. In a large bowl, mash the banana then combine with Greek yogurt, egg, maple syrup, vanilla extract and a pinch of salt. Stir well until you get a smooth mixture free of lumps.

Step 2 – Add dry ingredients. Add into the wet mixture oat flour, protein powder and baking powder. Stir the ingredients together while pouring in the milk gradually. Start with about 45 ml (3 tbsp) and add as much as 80 ml (⅓ cup) milk until the batter reaches the desired consistency. This depends on the type of protein powder that you are using. Finally, mix in the chocolate chips.

Step 3 – Bake. Fill ⅔ of each muffin liner with the batter, sprinkle with more chocolate chips and bake in hot oven for 20 to 25 minutes. Make sure you do not overbake them; they are ready when a toothpick inserted into the center comes out clean. Remove your chocolate chip protein muffins from the oven and let cool over a baking rack for about 15 minutes.

Making protein muffins

Storage directions

After baking, allow the muffins to cool and place any leftover in an airtight food container or ziplock bag. Refrigerate for a maximum of 4 days or freeze for up to 3 months. When you want to serve them, reheat for a couple of minutes in hot oven or quickly microwave until they are warm.

Tips for moist protein muffins

These are not the average protein muffins. These are the SOFTEST and MOISTEST protein muffins ever! The key is to follow a couple of golden rules which will make your desserts so moist that you won’t ever believe they have protein powder. Curious to learn more? Here are my 4 secrets unveiled.

  • Use Greek yogurt and mashed banana to add moisture and ensure your muffins won’t dry out when exposed to the high temperatures of the oven.
  • Choose vegan protein powder or casein rather than whey. These options behave just like normal flour and won’t ruin the texture of your cupcakes.
  • When preparing the batter, never overmix the ingredients because this tends to incorporate too much air in the mixture and make baked goods dry. Just mix until everything is combined and you don’t see lumps.
  • Do not overbake Greek yogurt muffins. 20 minutes at 180°C (350°F) should be enough; baking them for longer or at higher temperatures will spoil their texture.

Flavor variations

  • Banana bread. Add ground cinnamon and some chopped walnuts, if you desire.
  • Chocolate. Replace about 30 grams (1/4 cup) of the flour with cocoa powder and stir in some extra chocolate chips.
  • Blueberry. Fold through a generous amount of juicy blueberries.
  • Coconut. Add a couple tablespoons of shredded coconut, the perfect match with bananas and chocolate chips.
  • Apple cinnamon. Replace the banana with about 1/2 cup of applesauce, add ground cinnamon and stir in some apple chunks.
  • Walnuts or almonds. Add a handful of chopped nuts for some crunchiness.

Serving ideas

  • Breakfast: Serve with a bowl of yogurt and your favorite fruit for a balanced breakfast that will keep you full until lunchtime. Chef tip, try them with a dollop of nut butter!
  • Healthy snack: Alone or with fruit, have a Greek yogurt muffin as a high protein snack.
  • Post-workout refuel: Enjoy them with a shake or Greek yogurt for a high-protein snack after working out.
  • Guilt-free dessert: Satisfy your sweet tooth guilt-free with an oil-free protein cupcake. For a better experience I recommend pairing it with protein pudding or yogurt.
High Protein Chocolate Chip Muffins

FAQ – Frequently asked questions

Can I make vegan protein muffins?

Yes, you can. Replace the egg with one flaxseed egg, choose dairy-free yogurt alternatives and use a plant based protein powder of your choice.

Can I microwave muffins?

No, unfortunately muffins cannot be cooked in the microwave. You will need to bake them in hot oven, or they won’t get moist and fluffy as desired.

Can I make protein muffins without protein powder?

No protein powder? No problem. As these are Greek yogurt muffins, they are going to be high in protein also without. All you should do is replacing it with more oat flour. For an extra boost of protein, consider almond flour. It is a great source of high quality protein that is also low in carbs in rich in taste.

Does baking with protein powder denature the protein?

Protein powder does not go bad in heat and maintains its nutritional values. However, it denatures – or to put it simply, it changes its structure. But this is NOT a bad thing at all. Because the denaturation of protein is a process that normally occurs in your body.

How many calories in homemade protein muffins?

One Greek yogurt muffin provides about 120 calories, 8 grams of protein, 18 grams of carbohydrates and 3 grams of fats. Please remember that the precise macronutrient composition may vary based on the ingredients you use.

More high protein desserts

High Protein Dessert Recipes

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What about eating all your favorite desserts while reaching your fitness goals? This digital cookbook contains 50 macro-friendly protein dessert recipes for your diet. Chocolate cake, fudgy brownies, chewy cookies and much are waiting for you!

4.98 from 37 votes

Protein Muffins

Moist and delicious, these Greek yogurt Protein Muffins will satisfy your sweet tooth without guilt. This protein muffin recipe is quick, easy and so healthy that you'll be making it every week. It's oil-free, gluten-free and refined sugar free.
Prep Time: 10 minutes
Cook Time: 20 minutes
Total Time: 30 minutes
Servings: 12 muffins
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Ingredients

  • 1 large egg
  • 180 grams (⅔ cup) Greek yogurt
  • 1 ripe banana, about 100 grams (3.5 oz.)
  • 80 ml (⅓ cup) maple syrup, or honey
  • 150 grams (1 ½ cup) oat flour, or preferred flour
  • 50 grams (½ cup) protein powder, see notes*
  • 1 tsp vanilla extract
  • 2 tsp baking powder
  • tsp salt
  • 45 to 80 ml (3 tbsp to ⅓ cup) preferred milk, see notes*
  • 50 grams (¼ cup) chocolate chips, dark or extra dark

Instructions 

  • Preheat oven to 180°C (350°F) and prepare a muffin mold with muffin liners. Make sure you grease the muffin liners to prevent the desserts from sticking.
  • In a large bowl, mash the banana then combine with Greek yogurt, egg, maple syrup, vanilla extract and a pinch of salt. Stir well until you get a smooth mixture.
  • Add into the wet mixture oat flour, protein powder and baking powder. Stir the ingredients together while pouring in the milk gradually. Start with about 45 ml (3 tbsp) and add as much as 80 ml (⅓ cup) until the batter reaches the desired consistency. This depends on the type of protein powder that you are using (see notes*).
  • Mix in the chocolate chips.
  • Fill ⅔ of each muffin liner with the batter, sprinkle with more chocolate chips and bake in hot oven for 20 to 25 minutes. Make sure you do not overbake the muffins; they are ready when a toothpick inserted into the center comes out clean.
  • Remove your protein muffins from the oven and let cool over a baking rack for about 15 minutes.

Video

Notes

  • This protein muffin recipe uses vanilla vegan protein powder. You can replace with casein protein powder, a mix of whey and casein or whey (not recommended).
  • The quantity of milk depends on the type of protein powder you use. Casein and vegan protein powder will require more milk (about 80 ml or 1/3 cup) than whey (about 45 ml or 3 tbsp). Start with little and add as much milk as you need to get a smooth batter.

Nutrition

Serving: 1 muffin | Calories: 120kcal | Carbohydrates: 17.9g | Protein: 8.2g | Fat: 2.8g | Saturated Fat: 1.2g | Polyunsaturated Fat: 0.4g | Monounsaturated Fat: 0.4g | Trans Fat: 0.003g | Cholesterol: 21.3mg | Sodium: 121.3mg | Potassium: 134.3mg | Fiber: 1.8g | Sugar: 6.1g | Vitamin A: 37.8IU | Vitamin C: 0.9mg | Calcium: 85.8mg | Iron: 1.2mg
Like this recipe? Rate and comment below!

About Matteo

Iโ€™m the certified nutrition coach and fitness chef behind this blog. My mission is to make eating healthy easy and satisfying โ€“ for anyone and for any diet! My philosophy is simple: real food, clean ingredients and plenty of protein to feel your best.

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4.98 from 37 votes (28 ratings without comment)

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39 Comments

  1. 5 stars
    These turned out great! I used vegan protein powder and 1/2 cup almond flour with 1 cup regular flour. They are moist and fluffy. My son starts wrestling this week and they will be perfect for a snack.

    1. Hey Carin,
      Thanks a lot for your positive review. Glad you like this recipe for protein muffins, which are definitely perfect for your active son. Sweet, moist, fluffy and packed with protein – nothing to add I’d say.
      Have a great day,
      Matteo

  2. 5 stars
    Five stars all the way! Great recipe that allows for subs if needed. I love that Greek yogurt is included. These are packed with protein and not much sugar and make a great breakfast or anytime snack. I used Tofu instead of banana and rice malt syrup to sweeten.

  3. These are great! I subbed Tofu instead of banana and used rice malt syrup to sweeten. Added a small handful of oats. Turned out great! Today I will try again, this time using a mix of buckwheat flour, corn flour & white flour โ€”Iโ€™m just using the ingredients I have on hand and seeing how they go. So far so good!
    This is an excellent recipe, thanks for sharing.

    1. Hey Miki,
      thank you so much for the feedback! I love your substitutions (I need to try it with tofu), and I am so happy that you liked them. By far my favorite protein muffin recipe to date eheh ๐Ÿ˜‰
      Have a great day,
      Matteo

  4. 5 stars
    Made those yesterday with apple sauce instead of banana and I can tell you they were fantastic! I think this is *the best* protein muffin recipe I ever came across and I will definitely make them whenever my sweettooth needs satisfaction! Love it Matteo, thank you! ??

    1. Hey dear Mel,
      thank you SO much for your lovely feedback! I am incredibly happy to hear that you liked this Greek yogurt protein muffin recipe. I also make it with applesauce or pumpkin puree as a replacement for banana sometimes. Most and oh so delicious ๐Ÿ˜‰
      Have a great Sunday,
      Matteo

  5. Hello! If we replace the protein powder with oats. How much oats do we out in? Also would the amount of protein in each muffin still be the same? How much protein would each muffin approx have?

    1. Hey dear Mike,
      thanks a lot for your comment. You can replace protein powder with the same amount of oat flour (or blended rolled oats). Regarding the protein content, your muffins won’t be as high in protein as muffins made with protein powder but they will still contain a good amount of protein from the Greek yogurt.
      Have a great Friday,
      Matteo

  6. 5 stars
    I couldnโ€™t find the chocolate chips at the grocery store because they were in the middle of a remodel. Would blueberries work?

    1. Hey dear Beth,
      thanks a lot for your comment! Of course you can make protein muffins with blueberries. The berries pair so well with Greek yogurt in a moist muffin ๐Ÿ˜‰
      Have a fantastic day,
      Matteo