Healthy Blueberry Muffins
There’s nothing better than starting your morning with a freshly baked blueberry muffin—especially when it’s moist, naturally sweetened, and made with wholesome ingredients. These healthy blueberry muffins taste just as good as the classic version, but without refined sugar or unnecessary fats. And the best part? The crunchy oat crumble topping takes them to the next level!
If you’re looking for a healthy breakfast idea, an easy meal prep snack, or just a delicious treat that won’t make you feel guilty, this recipe is for you. If you love healthy muffins that don’t taste healthy, you’re going to love these.
Why These Blueberry Muffins are the Best
- Naturally Sweetened: Made with honey or maple syrup instead of refined sugar
- Packed with Protein: Greek yogurt keeps them soft and adds protein
- Juicy Blueberries in Every Bite: Bursting with natural sweetness
- Crunchy Crumble Topping: A delicious bakery-style finish
- Easy to Make & Meal Prep-Friendly: Perfect for busy mornings

Ingredients You’ll Need for the Healthy Blueberry Muffins:
For the Muffins:
- Flour – Whole wheat or spelt flour for fiber and nutrients
- Baking Powder & Baking Soda – Helps the muffins rise and stay fluffy
- Salt – Enhances flavor and balances sweetness
- Cinnamon – Optional, but adds a warm and cozy flavor
- Coconut Oil or Olive Oil – Keeps the muffins soft without unhealthy fats
- Honey or Maple Syrup – Natural sweeteners that add depth and richness
- Eggs – Binds the ingredients and helps with structure
- Greek Yogurt – Adds moisture, protein, and a slight tanginess
- Vanilla Extract – Enhances the natural sweetness of the muffins
- Blueberries – The star of the show! Fresh or frozen both work great
For the Crumble Topping:
- Oats – Adds a crunchy texture
- Whole Wheat Flour or Spelt Flour – Helps bind the crumble together
- Coconut Sugar or Brown Sugar – Adds sweetness and caramelization
- Coconut Oil or Butter – Creates the perfect crumbly texture
- Cinnamon – Gives the topping a warm, spiced flavor



Here are the essential tools you’ll need for making the Healthy Blueberry Muffins:
- Mixing Bowls: You’ll need a few mixing bowls in different sizes to combine the dry ingredients and wet ingredients.
- Whisk: A whisk is essential for blending the dry ingredients and whisking the wet ingredients until smooth.
- Electric Mixer: An electric hand mixer or Stand Mixer will help you cream all of the ingredients, ensuring a smooth texture.
- Muffin Pan: A muffin pan is needed to bake the cupcakes. Make sure it’s well-greased or lined with paper muffin liners.
- Measuring Scale: To accurately measure all your ingredients in grams.
- Cookie Scoop: A cookie scoop helps evenly distribute the batter into the muffin cups, ensuring uniform sizes.
- Cooling Rack: A cooling rack allows the muffins to cool evenly after baking, preventing them from becoming soggy.
Here is the full Recipe:
For the Muffins:
- 220g (1 ¾ cups) whole wheat or spelt flour
- 1 tsp baking powder
- ½ tsp baking soda
- ½ tsp fine sea salt
- ¼ tsp ground cinnamon (optional)
- 80ml (⅓ cup) melted coconut oil or extra-virgin olive oil
- 120ml (½ cup) honey or maple syrup
- 2 large eggs (room temperature)
- 240g (1 cup) plain Greek yogurt
- 2 tsp vanilla extract
- 150g (1 cup) blueberries (fresh or frozen)
For the Crumble Topping:
- 25g (¼ cup) rolled oats
- 25g (¼ cup) whole wheat or spelt flour
- 15g (2 tbsp) coconut sugar or brown sugar
- 30ml (2 tbsp) melted coconut oil or butter
- 0.5g (¼ tsp) ground cinnamon
Directions:
Step 1: Prep Your Ingredients
- Preheat your oven to 200°C (400°F).
- Line a 12-cup muffin tin with paper liners or lightly grease it with oil.
Step 2: Mix the Dry Ingredients
- In a large bowl, whisk together the flour, baking powder, baking soda, salt, and cinnamon.This creates a light and airy texture for your muffins!
Step 3: Combine the Wet Ingredients
- In a separate bowl, whisk together the melted coconut oil, honey (or maple syrup), eggs, Greek yogurt, and vanilla extract until smooth.
- This ensures even sweetness and moisture in every bite.
Step 4: Fold in the Blueberries
- Toss the blueberries in a teaspoon of flour before adding them to the batter.
- This prevents them from sinking to the bottom of the muffins.
Step 5: Make the Crumble Topping
- In a small bowl, mix the oats, almond flour, coconut sugar, cinnamon, and melted coconut oil until crumbly.
- This adds that irresistible crunchy texture on top!
Step 6: Assemble & Bake
- Divide the batter evenly into the muffin tin (fill each cup about ¾ full).
- Sprinkle the crumble topping generously over each muffin.
- Bake at 200°C (400°F) for 5 minutes, then reduce heat to 180°C (350°F) and bake for another 13–17 minutes.
- This temperature trick helps the muffins rise beautifully.
Step 7: Cool & Enjoy
- Let the muffins cool in the tin for 5 minutes, then transfer to a wire rack.
- Enjoy warm or store for later!
Tips for Perfect Blueberry Muffins
- Coat Blueberries in Flour – This keeps them evenly distributed in the batter.
- Don’t Overmix – Stir just until combined; overmixing makes muffins dense.
- Start with High Heat – That first 5 minutes at 200°C helps create a nice muffin top.
- Make Them Vegan – Use flax eggs and dairy-free yogurt for a plant-based version.
- Freeze for Later – These muffins freeze beautifully for up to 3 months.
Frequently Asked Questions (FAQ)
Can I Use Frozen Blueberries?
Yes! Just don’t thaw them before adding to the batter—they’ll stay juicy and won’t turn the batter blue.
Can I Make These Gluten-Free?
Absolutely! Use 1 ½ cups almond flour + ¼ cup oat flour instead of whole wheat flour.
How Do I Store These Muffins?
Keep them in an airtight container at room temperature for 2 days, or refrigerate for up to 5 days.
Can I Make These Muffins Without a Crumble Topping?
Of course! But trust me, the crumble adds a delicious crunch that’s totally worth it.
More Baking Ideas:
- Pumpkin Spice Pastry – Flaky puff pastry filled with a creamy pumpkin spice filling, perfect for a quick and cozy fall dessert!
- Banana Bread with Chocolate Chips – A moist, flavorful banana bread studded with melty chocolate chips, perfect for any time of year!
- Pumpkin Crumble Muffins -Moist pumpkin muffins topped with a buttery crumble, combining all the best flavors of fall in one delicious bite.
- Mini Apple Pies – Enjoy all the classic flavors of apple pie in these perfectly portioned, bite-sized treats!
Watch the recipe video here. Let’s get to baking! Here is the full recipe:
Healthy Blueberry Muffins
Course: Muffins, Snack, Breakfast12
servings10
minutes20
minutes30
minutesThese healthy blueberry muffins are fluffy, naturally sweetened, and packed with juicy blueberries. Made with spelt flour, Greek yogurt, and a crunchy oat crumble topping, they are the perfect guilt-free treat for breakfast or snacking!
Ingredients
- For the Muffins:
220g (1 ¾ cups) whole wheat or spelt flour
1 tsp baking powder
½ tsp baking soda
½ tsp fine sea salt
¼ tsp ground cinnamon (optional)
80ml (⅓ cup) melted coconut oil or extra-virgin olive oil
120ml (½ cup) honey or maple syrup
2 large eggs (room temperature)
240g (1 cup) plain Greek yogurt
2 tsp vanilla extract
150g (1 cup) blueberries (fresh or frozen)
- For the Crumble Topping:
25g (¼ cup) rolled oats
25g (¼ cup) whole wheat or spelt flour
15g (2 tbsp) coconut sugar or brown sugar
30ml (2 tbsp) melted coconut oil or butter
0.5g (¼ tsp) ground cinnamon
Directions
- Step 1: Prep Your Ingredients
Preheat your oven to 200°C (400°F).
Line a 12-cup muffin tin with paper liners or lightly grease it with oil. - Mix the Dry Ingredients: In a large bowl, whisk together the flour, baking powder, baking soda, salt, and cinnamon.This creates a light and airy texture for your muffins!
- Combine the Wet Ingredients: In a separate bowl, whisk together the melted coconut oil, honey (or maple syrup), eggs, Greek yogurt, and vanilla extract until smooth.
This ensures even sweetness and moisture in every bite. - Fold in the Blueberries: Toss the blueberries in a teaspoon of flour before adding them to the batter. This prevents them from sinking to the bottom of the muffins.
- Make the Crumble Topping: In a small bowl, mix the oats, almond flour, coconut sugar, cinnamon, and melted coconut oil until crumbly. This adds that irresistible crunchy texture on top!
- Assemble & Bake: Divide the batter evenly into the muffin tin (fill each cup about ¾ full).
Sprinkle the crumble topping generously over each muffin. Bake at 200°C (400°F) for 5 minutes, then reduce heat to 180°C (350°F) and bake for another 13–17 minutes.
This temperature trick helps the muffins rise beautifully. - Cool & Enjoy: Let the muffins cool in the tin for 5 minutes, then transfer to a wire rack.
Enjoy warm or store for later!