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These Mocha Fudge Muffins are a decadent, yet healthy way to start a day! These  paleo muffins are rich and chocolate-y and give you just the right amount of coffee buzz to get your day going. They are a gluten-free treat you can feel good about eating with no white flour and no refined sugar and with packed healthy fats! Make these for the holidays, a weekend brunch or for a more delicious weekday morning and you won’t be disappointed.

Gluten free chocolate muffins

Mocha Fudge Muffins

These muffins have the perfect texture. I love using almond flour as the base for my muffin recipes because they make the best gluten-free muffins without needing to add a lot of other fussy ingredients. Adding the cocoa powder to these combines to create a fluffy and light muffin that is still able to hold up the fudge filling.  Plus, they’re a breeze to make!

Gluten free chocolate muffins almond flour

If you like this chocolate muffin recipe, check out these others:

Healthy gluten free chocolate muffins

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Mocha Fudge Muffins

Servings 10
Prep Time 10 minutes
Cook Time 15 minutes
Total Time 25 minutes


  • 1 cup blanched almond flour
  • 1 teaspoon baking soda
  • 1 teaspoon espresso powder
  • 1 tablespoon cocoa powder
  • pinch of fine sea salt
  • 3 eggs
  • 1/4 cup unsweetened applesauce
  • 3 tablespoons honey
  • 1/2 teaspoon vanilla

For Fudge:

  • 1/2 cup dark chocolate
  • 1 tablespoon full-fat coconut milk


  • Preheat oven to 350ºF and line a muffin tin with parchment paper liners.
  • In a large bowl combine dry ingredients: almond flour, baking soda, espresso powder, cocoa powder, and sea salt
  • In a separate bowl whisk together wet ingredients: eggs, applesauce, honey and vanilla.
  • Pour the wet ingredients into the dry and mix together until fully combined.
  • Make the fudge by heating chocolate using preferred method (see note) and add in tablespoon of coconut milk and whisk to combine.
  • Fill the lined muffin tins 2/3 of the way up and drop in 1 teaspoon of the fudge.
  • Bake for 15 minutes, or until an inserted toothpick removes cleanly.


We like to melt chocolate using a double boiler. Here is how you do that:
Add 1” of water to a medium saucepan or pot and bring to a very gentle simmer.
Place a heat-safe bowl on top of the pot so that the bottom of the bowl is not touching the water.
Add the chopped chocolate to the bowl and stir occasionally with a spatula until smooth and melted.


Serving: 1muffinCalories: 82kcalCarbohydrates: 6gProtein: 2.5gFat: 4.6gSaturated Fat: 2.1gCholesterol: 43mgSodium: 30mgFiber: 0.7gSugar: 4.6g
Author: Lexi

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  1. I’ve baked these before and they are delicious! Thanks so much for the yummy recipe. I’m wondering about substituting arrowroot flour or maybe rice flour or a combination of the two. I’m trying to stay away from almond flour/meal because of the concerns with cooking with it. Thanks again!

  2. I’m living in the UK right now and I can’t find applesauce anywhere! Besides making my own, is there anything else I could use to substitute?

  3. Yum, I just made these- I left out the fudge part, so the recipe made 5 large muffins (it took a bit longer to bake). I didn’t have enough honey, so I used about 1 Tbs honey, 1 Tbs coconut sugar, and 1 Tbs maple syrup for sweetening. I omitted the espresso powder (subbed an extra tsp of cocoa powder). They are moist and YUMMY!

  4. Gah I need one of these SO bad right now! I would totally be taking a trip to the grocery store if it wasn’t 1° outside! These look decadent!

  5. Oh my goodness, these look amazing!! My favorite muffin growing up was a cappuccino chocolate chip, a muffin flavor combo I haven’t had in years. As soon as I’m eating sugar again, I’m making these ASAP!

  6. My chocolate cravings have definitely kicked in after seeing this delicious mocha muffins. Wish I had one to devour right now!

  7. Lexi, these look absolutely insane! I can give or take muffins but if it’s chocolate or banana AND chocolate I’m all game!

  8. I can’t think of any other way to start the morning! I mean chocolate in my muffins? I’m sold 😉