Chocolate Protein Muffins Snack

Featured in: Crunchy Snacks

Delight in tender chocolate muffins that combine wholesome wheat flour, cocoa, and a boost of your favorite protein powder. Naturally sweetened and packed with Greek yogurt, applesauce, and a hint of honey or maple syrup, these muffins are rich, satisfying, and easy to prepare. The optional dark chocolate chips deliver bursts of decadence, making these muffins a nutritious choice for breakfast or a convenient snack. They store well for busy days and also freeze beautifully for batch baking and meal prep.

Updated on Sat, 04 Oct 2025 13:09:47 GMT
Freshly baked chocolate protein muffins on a cooling rack, showing their moist, rich interior Save
Freshly baked chocolate protein muffins on a cooling rack, showing their moist, rich interior | kookycrunch.com

These chocolate protein muffins are my solution for those mornings when you need something delicious and energizing but also wholesome. With a rich chocolate flavor and a moist, tender crumb, they make a perfect grab-and-go breakfast or afternoon pick-me-up that you can actually feel good about.

The first time I baked these, my family barely let them cool before reaching for seconds. Now they disappear almost as quickly every time

Ingredients

  • Whole wheat flour: Boosts fiber and gives a heartier texture Look for finely ground flour for soft muffins
  • Unsweetened cocoa powder: Deeply chocolatey flavor Choose Dutch process for smoother taste if available
  • Whey or plant-based protein powder: Adds a big protein punch Pick a brand with quality ingredients and flavor you love
  • Baking powder and baking soda: Make the muffins rise and keep them fluffy Check both for freshness before baking
  • Salt: Enhances chocolate flavor Use a fine salt for the best distribution
  • Eggs: Bind everything together and help lift the muffins Room temperature eggs mix more easily
  • Unsweetened applesauce: Provides moisture and natural sweetness Opt for unsweetened to control sugar
  • Greek yogurt: Adds richness and protein Whole or low-fat work well
  • Honey or maple syrup: Naturally sweetens the muffins and keeps them moist Go for pure honey or real maple syrup
  • Milk of your choice: Adds moisture Dairy or plant-based both work
  • Vanilla extract: Enhances the overall flavor Pure vanilla gives the best aroma
  • Melted coconut oil or vegetable oil: Ensures the muffins stay soft Choose neutral oil or refined coconut oil for less coconut flavor
  • Dark chocolate chips: Extra chocolate bursts in every bite Use high quality chips for the best melt and flavor

Instructions

Preheat and Prep:
Set your oven to 350 degrees Fahrenheit or 175 degrees Celsius Line a standard 12-cup muffin tin with paper liners or lightly grease with oil so the muffins release easily
Mix Dry Ingredients:
In a large bowl combine whole wheat flour cocoa powder protein powder baking powder baking soda and salt Whisk thoroughly to break up any clumps and ensure the baking agents are evenly distributed
Blend Wet Ingredients:
In a separate medium bowl beat together the eggs applesauce Greek yogurt honey or maple syrup milk vanilla extract and melted coconut oil Use a whisk until the mixture turns completely smooth and creamy
Combine Wet and Dry Mixtures:
Pour the wet mixture over the dry ingredients Use a silicone spatula or wooden spoon to gently fold the ingredients together Mix until you no longer see dry streaks of flour but avoid overmixing which can make muffins tough
Fold in Chocolate Chips:
Add the chocolate chips to the batter Carefully fold them in to distribute them throughout Try to avoid over-stirring at this stage
Portion the Batter:
Divide the muffin batter evenly between the prepared muffin cups Fill each cup nearly to the top for well-sized muffins
Bake:
Place the tin in the preheated oven and bake for 18 to 22 minutes The muffins are done when a toothpick inserted into the center comes out mostly clean with just a few moist crumbs attached
Cool:
Remove the pan from the oven Let muffins cool in the tin for about 5 minutes This allows them to firm up before transferring to a wire rack to cool completely
Chocolate protein muffins stacked on a plate, ideal for a healthy breakfast or post-workout snack Save
Chocolate protein muffins stacked on a plate, ideal for a healthy breakfast or post-workout snack | kookycrunch.com

The cocoa powder is my favorite ingredient in these muffins It turns an everyday snack into something that feels decadent I remember my kids getting excited to find a chocolate chip surprise in the center and now they love helping fold them in

Storage Tips

Once cooled completely store muffins in an airtight container at room temperature for up to three days For longer storage freeze the muffins unwrapped on a baking sheet then transfer to a zip-top bag They reheat perfectly in a microwave for about twenty seconds and are just as tasty after thawing

Ingredient Substitutions

To make them dairy-free use plant-based yogurt and a dairy-free milk like oat or almond Swap honey for maple syrup or agave if you want to mix up the flavor For nut allergies check your protein powder and chocolate chips Nut-free varieties work every bit as well and still taste great

Serving Suggestions

These muffins are ideal with a cup of coffee or a glass of milk For extra indulgence warm one up and add a dollop of Greek yogurt or a drizzle of nut butter They also make a great post workout snack thanks to their balance of carbs and protein

Cultural and Seasonal Adaptations

Chocolate muffins are a classic treat in American baking but this version is upgraded for health without leaving out the comfort For summer stir in fresh raspberries or blueberries For winter a pinch of cinnamon or espresso powder makes a cozy twist

Three Quick Notes

  • You can mix in chopped nuts if allergies are not a concern
  • A kitchen scale gives the most accurate results with flour or cocoa
  • Check your baking powder's expiration for perfect rise every time

Success Stories

I have made these muffins at least a dozen times for everything from school lunchboxes to girls brunches They are always one of the first snacks to vanish and I get asked for the recipe every time I serve them They are so foolproof that even beginner bakers score perfect results

Freezer Meal Conversion

To freeze these as a make ahead breakfast bake the muffins as usual and let them cool Lay them on a baking sheet and freeze Once solid transfer to a freezer bag They will keep up to two months Pop into the microwave or toaster oven to reheat for a convenient and satisfying treat

Chocolate protein muffins with melty chocolate chips, perfect for a high-protein, nut-free treat Save
Chocolate protein muffins with melty chocolate chips, perfect for a high-protein, nut-free treat | kookycrunch.com

These chocolate protein muffins are a wholesome and delicious way to start your day or enjoy a healthy snack. Feel free to customize them with your favorite mix-ins for a truly personalized treat.

Recipe FAQ

Can I use plant-based protein powder in these muffins?

Yes, any plant-based or dairy-based protein powder works. For nut-free needs, check the ingredient label.

Are these muffins suitable for a dairy-free diet?

Absolutely! Substitute Greek yogurt and milk with dairy-free alternatives to suit your preferences.

How can I make the muffins sweeter?

Increase the honey or maple syrup slightly, or add chocolate chips for extra sweetness and richness.

Can I add nuts or seeds for extra texture?

Certainly. Chopped nuts or seeds make a crunchy, wholesome twist, but check for allergens if needed.

What’s the best way to store these muffins?

Store in an airtight container at room temperature for three days, or freeze for up to two months.

Is overmixing a concern with this batter?

Yes, stir just until combined. Overmixing can make the muffins dense or tough.

Chocolate Protein Muffins Snack

Moist, protein-rich chocolate muffins ideal for breakfast or a grab-and-go snack.

Prep duration
15 min
Cook duration
20 min
Complete duration
35 min
Created by Jake Peterson


Skill level Easy

Heritage American

Output 12 Portions

Diet considerations Meat-free

Components

Dry Components

01 1 cup (120 g) whole wheat flour
02 1/2 cup (45 g) unsweetened cocoa powder
03 1 cup (90 g) chocolate or vanilla protein powder
04 1 teaspoon baking powder
05 1/2 teaspoon baking soda
06 1/4 teaspoon salt

Wet Components

01 2 large eggs
02 1 cup (240 ml) unsweetened applesauce
03 1/2 cup (120 ml) plain, nonfat or 2% Greek yogurt
04 1/3 cup (80 ml) honey or maple syrup
05 1/4 cup (60 ml) milk of choice
06 1 teaspoon vanilla extract
07 1/4 cup (60 ml) melted coconut oil or vegetable oil

Optional Additions

01 1/2 cup (85 g) dark chocolate chips

Directions

Phase 01

Preheat and Prepare: Preheat oven to 350°F (175°C). Line a 12-cup muffin tin with paper liners or lightly grease with oil.

Phase 02

Combine Dry Ingredients: In a large mixing bowl, whisk together whole wheat flour, cocoa powder, protein powder, baking powder, baking soda, and salt.

Phase 03

Combine Wet Ingredients: In a separate bowl, beat together the eggs, applesauce, Greek yogurt, honey (or maple syrup), milk, vanilla extract, and melted coconut oil until smooth.

Phase 04

Integrate Components: Pour the wet ingredients into the bowl with the dry ingredients. Stir gently until just combined; avoid overmixing.

Phase 05

Incorporate Additions: Gently fold in the dark chocolate chips, if using.

Phase 06

Portion Batter: Divide the batter evenly among the 12 prepared muffin cups.

Phase 07

Bake: Bake for 18 to 22 minutes, or until a toothpick inserted into the center of a muffin comes out clean or with a few moist crumbs.

Phase 08

Cool: Allow muffins to cool in the tin for 5 minutes before transferring them to a wire rack to cool completely.

Necessary tools

  • 12-cup muffin tin
  • Mixing bowls
  • Whisk
  • Measuring cups and spoons
  • Cooling rack

Allergy details

Review each component carefully for potential allergens and consult with healthcare professionals if you're uncertain about any ingredient.
  • Contains: Eggs, Dairy (from Greek yogurt and milk, potentially protein powder), Gluten (from flour).
  • If using plant-based protein powder, verify the absence of nut or soy allergens.
  • Always consult the labels of protein powder and chocolate chips for specific allergen information.

Nutrient breakdown (per portion)

These values are estimates only and shouldn't replace professional medical guidance.
  • Energy: 170
  • Fats: 5 g
  • Carbohydrates: 21 g
  • Proteins: 9 g