Gluten-Free Blueberry Lemon Muffins

These Gluten-Free Blueberry Lemon Muffins combine almond flour, oat flour, blended cottage cheese, fresh lemon juice, and blueberries for a fluffy, naturally sweetened treat. Topped with coconut and white chocolate chips, they’re perfect for breakfast, brunch, or special occasions like Easter and baby showers.

Gluten-Free Blueberry Lemon Muffins on a cooling rack.

These Gluten-Free Blueberry Lemon Muffins are everything you want in a muffin: light, fluffy, and bursting with fresh flavors. Made with almond flour, oat flour, blended cottage cheese, fresh lemon juice, and blueberries, this recipe uses simple ingredients to create a delicious treat. Topped with coconut and white chocolate chips, these muffins offer a refreshing twist on a classic.

What sets this recipe apart is how the natural sweetness of honey and the rich texture of cottage cheese keep the muffins moist while reducing the need for refined sugars. Whether you’re prepping breakfast for a busy morning or serving them for a special occasion like Easter, baby showers, or brunch, these muffins are a guaranteed hit. With my time-saving techniques and focus on wholesome ingredients, this recipe brings bakery-style results to your home kitchen effortlessly.

Why You’ll Love This Gluten-Free Blueberry Lemon Muffin Recipe

  • Fluffy and Moist Texture: These muffins bake up light and fluffy, with the perfect balance of lemon and blueberry flavors.
  • Wholesome Ingredients: Made with almond flour, oat flour, and naturally sweetened with honey for a recipe that’s simple and satisfying.
  • Perfect for Any Occasion: Great for breakfast, brunch, or special events like Easter, baby showers, or bridal showers.
  • Easy to Make: With minimal ingredients and straightforward steps, these muffins come together effortlessly for a bakery-style treat at home.
Gluten-Free Blueberry Lemon Muffins on a cooling rack.

Ingredients & Substitutions

Here is all you need to make the best gluten-free lemon blueberry muffins recipe:

Honey: Substitute with maple syrup, agave nectar, or brown rice syrup.

Cottage Cheese: You can swap with greek yogurt, sour cream, or ricotta cheese.

Unsweetened Applesauce: You can replace with smashed bananas in the same amount.

Fresh Blueberries: You can use fresh or frozen blueberries.

Eggs: Try using flax eggs (1 tablespoon ground flaxseed mixed with 3 tablespoons water per egg) or chia eggs.*

Lemon Juice: Freshly squeezed lime juice or orange juice can be used instead.

Oil (Light Olive): Swap with melted coconut oil, vegetable oil, or melted butter (if not dairy-free).

Lemon Zest: Orange zest can also be used for a delicious citrus flavor.

Vanilla Extract: You can use pure vanilla extract or imitation.

Almond Extract: You can omit or replace with hazelnut extract.

Oat Flour: Replace with brown rice flour or almond flour.

Almond Flour: You can replace it with an equal amount of oat flour. However, the texture will be more dense.

Tapioca Flour: Arrowroot flour or potato starch can be substituted.

*I have not tested this substitution

Gluten-Free Blueberry Lemon Muffins on a cooling rack.

How to Make My Blueberry Lemon Muffin with Almond Flour Recipe

Step 1: Prepare the Ingredients

Preheat oven to 425°F. Line your muffin pan with cupcake liners and lightly spray with non-stick spray. 

Zest and juice one lemon. 

Add one teaspoon of tapioca flour to a bowl and shake the fresh or frozen blueberries to coat them lightly. The flour coating will provide some friction to the blueberries so they don’t sink to the bottom of the muffins during baking.

Adding wet ingredients to muffin batter.
Adding wet ingredients to muffin batter.

Step 2: Make the Muffin Batter

In an upright blender, food processor, or large mixing bowl with an immersion or stick blender, add the wet ingredients, including honey, applesauce, lemon juice, lemon zest, coconut oil, vanilla extract, and almond extract. Blend until the bananas and cottage cheese are smooth. Add the eggs and mix until combined.

Add the dry ingredients to the mixing bowl, including oat flour, tapioca flour, almond flour, baking powder, baking soda, and salt. Mix with a whisk until blended. Allow the batter to rest for 5-10 minutes. The batter will become fluffier as it rests.
Gently fold the blueberries, shredded coconut, and white chocolate chips in with a spatula.

Mixing gluten-free blueberry lemon muffin batter in a glass mixing bowl with a whisk.
Folding in the blueberries and white chocolate chips to the muffin batter.

Step 3: Bake the Muffins

Fill the muffin cups nearly full with batter. Allow the batter to mound higher in the middle. Sprinkle additional blueberries, white chocolate chips, and coconut as a garnish on top of each muffin.

To get a higher dome on the muffins, bake at 425°F for 5 minutes. Leave the muffin tin in the oven, reduce the heat to 350°F, and bake for an additional 12-14 minutes or until the muffin tops are lightly brown. Allow to cool on a wire rack and sprinkle with lemon zest. 

Sprinkling coconut on top of the gluten-free blueberry lemon muffins.
Gluten-Free Blueberry Lemon Muffins on a cooling rack.

Lemon Blueberry Muffin Gluten-Free Recipe Notes

Cottage Cheese Texture: Be sure to blend the cottage cheese to remove the curdled texture. Otherwise the white curds will be visible in the muffins.

Batter Consistency: Allowing the batter to rest after you mix in the dry ingredients will give the baking powder to activate and make the dough lighter and fluffier.

Heat Boost: Baking the muffins at the higher temperature for the first five minutes will help create the bakery-style high dome on top of the muffins.

Delicious Serving Suggestions

  • For Breakfast: Serve warm with a side of Greek yogurt and fresh berries.
  • At Brunch: Pair with a light salad or quiche for a complete brunch spread.
  • With Coffee or Tea: Perfect for an afternoon snack with your favorite hot drink.
  • Holiday Gatherings: Dress them up with extra lemon zest and serve at Easter or other celebrations.
  • Dessert: Add a drizzle of honey or a light glaze for a sweet dessert twist.
  • On the Go: Pack them up for a quick and wholesome breakfast or snack during a busy day.
  • Kid-Friendly: Let kids add their favorite toppings, like extra white chocolate chips or fresh blueberries.

Refrigeration: Store the muffins in an airtight container or sealable plastic bag to prevent them from drying out. They can be stored in the refrigerator for up to 5-7 days.

Freezing: Wrap each muffin individually in plastic wrap or aluminum foil, or place them in a single layer in a freezer bag. Label the bag with the date for easy tracking. They can be frozen for up to 2-3 months. Allow to thaw in the fridge. 

Thawing: When ready to eat, thaw frozen muffins in the refrigerator overnight or at room temperature for a few hours. You can also use the microwave for a quick thaw, but be cautious not to overheat and dry out the muffins.

Can I substitute the honey with another sweetener in gluten-free blueberry muffins?
Yes, you can use alternative sweeteners like maple syrup, agave nectar, or brown rice syrup.

How can I replace cottage cheese in this gluten-free lemon muffin recipe?
Substitute cottage cheese with alternatives like almond milk, coconut milk, or soy milk in this blueberry muffin recipe.

Can I freeze these muffins?
Yes, you can freeze the muffins for up to 2-3 months. Ensure they are completely cooled before wrapping them individually and placing them in a freezer bag.

Can I make these blueberry lemon muffins dairy-free?
Absolutely! Choose dairy-free alternatives for cottage cheese and use non-dairy milk in place of regular milk.

Can I use frozen blueberries instead of fresh?
Yes, you can use frozen blueberries. However, fold them into the batter gently to prevent the color from bleeding too much.

Can I omit the lemon zest from the lemon muffins?
Yes, but the lemon flavor won’t be quite as strong.

Gluten-Free Blueberry Lemon Muffins on a cooling rack.

Gluten-Free Blueberry Lemon Muffins Recipe

These Gluten-Free Blueberry Lemon Muffins combine almond flour, oat flour, blended cottage cheese, fresh lemon juice, and blueberries for a fluffy, naturally sweetened treat. Topped with coconut and white chocolate chips, they’re perfect for breakfast, brunch, or special occasions like Easter and baby showers.
5 from 6 votes
Servings 12
Prep Time 20 minutes
Cook Time 15 minutes

Ingredients
  

WET INGREDIENTS:

  • 1/2 cup honey
  • 1/3 cup cottage cheese
  • 1/4 cup unsweetened applesauce
  • 3 eggs
  • 1/4 cup lemon juice
  • 3 tablespoons oil (light olive is my fave)
  • 1 tablespoon lemon zest
  • 2 teaspoons vanilla extract
  • 1/4 teaspoon almond extract

DRY INGREDIENTS:

MIX-INS

  • 1 cup blueberries (fresh or frozen)
  • 1/4 cup white chocolate chips (optional)
  • 1/4 cup shredded coconut (optional)

Instructions
 

  • Preheat oven to 425°F. Line your muffin pan with cupcake liners and lightly spray with non-stick spray.
  • Zest and juice one lemon. 
  • Add one teaspoon of tapioca flour to a bowl and shake the fresh or frozen blueberries to coat them lightly. The flour coating will provide some friction to the blueberries so they don't sink to the bottom of the muffins during baking.
  • In an upright blender, food processor, or large mixing bowl with an immersion or stick blender, add the wet ingredients, including honey, applesauce, lemon juice, lemon zest, coconut oil, vanilla extract, and almond extract. Blend until the bananas and cottage cheese are smooth. Add the eggs and mix until combined.
  • Add the dry ingredients to the mixing bowl, including oat flour, tapioca flour, almond flour, baking powder, baking soda, and salt. Mix with a whisk until blended. Allow the batter to rest for 5-10 minutes. The batter will become fluffier as it rests. Gently fold the blueberries, shredded coconut, and white chocolate chips in with a spatula.
  • Fill the muffin cups nearly full with batter. Allow the batter to mound higher in the middle. Sprinkle additional blueberries, white chocolate chips, and coconut as a garnish on top of each muffin.
  • To get a higher dome on the muffins, bake at 425°F for 5 minutes. Leave the muffin tin in the oven, reduce the heat to 350°F, and bake for an additional 12-14 minutes or until the muffin tops are lightly brown. Allow to cool on a wire rack and sprinkle with lemon zest. 

Notes

Cottage Cheese Texture: Be sure to blend the cottage cheese to remove the curdled texture. Otherwise the white curds will be visible in the muffins.
Batter Consistency: Allowing the batter to rest after you mix in the dry ingredients will give the baking powder to activate and make the dough lighter and fluffier.
Heat Boost: Baking the muffins at the higher temperature for the first five minutes will help create the bakery-style high dome on top of the muffins.

Nutrition

Calories: 212kcalCarbohydrates: 23gProtein: 5gFat: 12gSaturated Fat: 3gPolyunsaturated Fat: 1gMonounsaturated Fat: 3gTrans Fat: 0.02gCholesterol: 43mgSodium: 253mgPotassium: 80mgFiber: 2gSugar: 16gVitamin A: 76IUVitamin C: 4mgCalcium: 82mgIron: 1mg
Keyword almond flour, blueberry lemon muffin, blueberry muffin, gluten-free pancakes, healthy breakfast, naturally sweetened, oat flour, white chocolate
Did you make this recipe and love it?Please let me know in the comments below how it turned out 🙂

6 Comments

  1. I cant wait to try these! Can I substitute the oat, almond and tapioca flour with a pre mixed GF flour blend? If so would I use 3 cups? Thanks so much for your awesome and tasty recipes!!!!

    1. Hi Gale,
      I’m excited for you to try these! I haven’t tested them yet with a GF blend flour. I recommend starting with 2 cups of GF flour. Then add more if needed once you’ve added all the ingredients to get the same batter consistency as mine in the video. GF flour is much more absorbent than almond flour so it’s not an even swap. If your GF flour has xanthan gum in it, then you may want to reduce the baking powder to 1 1/2 teaspoons and the baking soda to 1/4 teaspoon. This should still give you a nice rise without overpowering the structure from the xanthan gum. You could also make a half batch of this recipe to test it. Let me know how it goes! 😊

5 from 6 votes (5 ratings without comment)

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