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This healthy chocolate muffin recipe tastes like a cross between a chocolate cake and a brownie. You’d never know that there’s pumpkin puree hidden inside! (It’s for texture, not flavor.)

There’s no flour or oil required, so they are naturally gluten-free, and kids love them!

⭐⭐⭐⭐⭐ Featured Review

“I make these muffins all the time! Healthier version of a chocolate, chocolate chip muffin! Love them! Dense, moist, and rich! Everything you would desire in a chocolate muffin!” -Christine

chocolate muffins in pan and on a plate.

Chocolate Pumpkin Muffin Ingredients

Here’s what you’ll need:

  • Almond Butter. Use an almond butter that doesn’t have a strong, roasted flavor for the best results. I like the “raw” almond butter from Trader Joe’s or homemade almond butter. Cashew butter also works similarly, if you have that.
  • Pumpkin Puree. I use canned pumpkin puree for convenience. This adds a fluffy texture and extra nutrients to the muffins, but the flavor isn’t noticeable.
  • Cacao Powder. This adds a rich chocolate flavor, but regular cocoa powder should work, too.
  • Natural Sweeteners. A combination of maple syrup and coconut sugar works together to make these muffins have structure and a brownie-like flavor.
  • Pantry Staples. Vanilla extract, baking soda, and salt complete the muffins to make sure they are flavorful and rise as they bake.
  • Chocolate Chips. These are optional, but make a fun addition for a “double chocolate” muffin.
healthy chocolate muffin ingredients labeled in glass bowls.

How to Make Chocolate Pumpkin Muffins

Step 1:

Preheat the oven to 350ºF and line a muffin tin with 12 parchment paper liners.

In a large mixing bowl, combine the almond butter, pumpkin puree, eggs, coconut sugar, maple syrup, cacao powder, vanilla extract, baking soda, and salt.

Mix well until the batter looks smooth. 

chocolate muffin batter mixed together in glass bowl.

Step 2:

Fold in the chocolate chips if you prefer a double-chocolate muffin. Then, use a 1/4 cup measure to scoop the batter into each muffin liner. You should get 12 muffins from this recipe.

Sprinkle a few extra chocolate chips on top, if you’d like.

chocolate chips added to the batter and poured into muffin tin.

Step 3:

Bake in the oven at 350ºF for 25 minutes, or until the tops of the muffins rise and look dry on top. If the center of the muffin sinks significantly, that means they probably didn’t cook quite long enough.

You can also test the center of the muffin with a toothpick, if you prefer.

chocolate muffins in the pan before and after baking.

Serving and Storage Tips

Let the muffins cool in the pan for 20 minutes, then transfer them to a wire rack to finish cooling completely.

Serve the muffins at room temperature, then store any leftovers in an airtight container in the fridge for up to a week. 

chocolate muffin split open on a plate to show the fluffy texture.

Frequently Asked Questions

Do these muffins freeze well?

Yes, you can store the muffins in an airtight container in the freezer for up to 3 months. To thaw, place them in the fridge for up to 48 hours so they can soften again.

Can I use a different sweetener?

You can replace the maple syrup with honey if you prefer, but the honey flavor will be slightly more noticeable. I don’t recommend replacing the granulated sugar with a liquid sweetener, as you might not achieve the same texture. However, you can use another granulated sugar if needed. 

Do I have to use muffin liners?

If you grease the pan with cooking spray or coconut oil, the muffins will not release quite as nicely. (The muffin liners guarantee they’ll come out of the pan easily.) Without the liners, you’ll probably need to run a knife around the edges to help them release from the pan. 

chocolate muffins in pan and on a plate.

Healthy Chocolate Muffins (with Pumpkin!)

4.94 from 87 votes
These Healthy Chocolate Muffins have a remarkably fluffy texture, without using flour or oil. They taste like a cross between chocolate cake and brownies, with a hidden vegetable inside. (But you'd never guess just by tasting them!)
prep5 mins cook25 mins total30 mins
Servings:12

Ingredients
 
 

Instructions

  • Preheat the oven to 350ºF and line a muffin tin with 12 muffin liners. In a large bowl, stir together the almond butter, pumpkin puree, eggs, maple syrup, coconut sugar, cacao powder, vanilla extract, baking soda, and salt. Once the batter looks smooth, fold in the chocolate chips.
  • Use a ¼ cup measure to divide the batter between the 12 prepared muffin cups. Sprinkle a few extra chocolate chips on top, if you like.
  • Bake at 350ºF until the muffins have risen, and the center looks dry, about 25 minutes.
  • Let the muffins to cool in the pan for 20 minutes, then transfer them to a wire rack to cool completely. You can serve them at room temperature, or store them in an airtight container in the fridge for up to a week.

Video

Notes

  • Nutrition information is for 1 of 12 muffins, including the chocolate chips. This information is automatically calculated and is just an estimate, not a guarantee.
  • See the full post above for substitution tips. You can use any other nut butter or fruit/veggie puree in this recipe for a similar texture, but the flavor will change depending on what you use.
  • I haven’t had the chance to test a vegan version of this recipe yet, so I’m not sure if there’s a successful swap for eggs.
Update Note: This recipe used to be called “Paleo Double Chocolate Pumpkin Muffins,” but was updated in January 2023 with a shorter name and updated photos. The recipe has not changed, but you can see the original version here.

Nutrition

Calories: 230kcal | Carbohydrates: 20g | Protein: 6g | Fat: 16g | Saturated Fat: 3g | Polyunsaturated Fat: 3g | Monounsaturated Fat: 8g | Trans Fat: 0.01g | Cholesterol: 27mg | Sodium: 122mg | Potassium: 282mg | Fiber: 4g | Sugar: 11g | Vitamin A: 1631IU | Vitamin C: 0.4mg | Calcium: 94mg | Iron: 2mg
Course: Breakfast
Cuisine: American
Keyword: healthy chocolate muffins

More Recipes to Try

If you try these healthy chocolate muffins, please leave a comment and star rating below letting me know how you like them.

Megan Gilmore leaning on her white countertop.

Megan Gilmore

Hi, I’m Megan. A former fast food junkie turned best-selling cookbook author. As a Certified Nutritionist Consultant (CNC), I love to make healthier food using simple ingredients. I test these recipes multiple times in my kitchen to make sure they will turn out perfectly for you.

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Comments

  1. Thank you for including these in your meal plan email. I haven’t made them in a long time, kind of forgot about them. They are delicious! I sometimes chop up some strawberries and use a little coconut non dairy whipped topping. I impressed many a guest with this “dessert”.

  2. I have been making these muffins for years! They’re absolutely delicious! I make them all year round👍 better than regular brownies!!!!

  3. Delighted with these. I love how detoxinista sneaks in sweet but healthy veg into food. Family loves and makes me feel better at the same time.

  4. These are an absolute favorite and huge hit in our house, even my picky kid gobbles them up. I am constantly sharing this recipe with friends, especially ones who are gluten free. Have you ever made this without the cocoa and added pumpkin spice spices to make them more pumpkin-y?

  5. I make these muffins all the time! Healthier version of a chocolate, chocolate chip muffin! Love them! Dense, moist, and rich! Everything you would desire in a chocolate muffin!