Love to bake? These Healthy Paleo Zucchini Chocolate Chip Muffins are grain-free, gluten-free, dairy-free and paleo. These paleo muffins are easy, fluffy, and so delicious! 

Healthy Paleo Zucchini Chocolate Chip Muffins (GF, DF, Paleo)

I love baking. There’s something so therapeutic about it, and I love having baked good on hand afterwards for me and my family. When I went grain free almost two years ago, I thought baked things were a thing of the past. Lucky for me, I was wrong! With a little practice and learning, I’ve learned to love baking with coconut flour and cassava flour. These Paleo Zucchini Chocolate Chip Muffins are grain free, gluten free, dairy free but not free of taste! I’ve been enjoying them with a cup of coffee in the morning, and even as an afternoon snack. Here’s more about this new recipe, why I like it, and how to make them.

Healthy Paleo Zucchini Chocolate Chip Muffins - #paleodessert

A healthy chocolate chip zucchini muffin

  • Includes veggies within
  • Low in sugar and sweetened with coconut sugar
  • Grain free
  • Paleo-friendly
  • A healthy after-school snack
  • Great throw in for healthy school lunches
  • Easy to make ahead and freeze

Easy healthy paleo zucchini chocolate chip muffins made with coconut flour. #paleobaking #coconutflourrecipe

5 from 2 votes
Easy healthy paleo zucchini chocolate chip muffins: coconut flour muffins
Healthy Paleo Zucchini Chocolate Chip Muffins
Prep Time
10 mins
Cook Time
5 mins

A healthy version of zucchini muffins that are baked with coconut flour, eggs, shredded zucchini and some chocolate chips. The perfect healthy breakfast or snack!

Course: Snack
Cuisine: American
Keyword: baked goods, grain-free, muffin, paleo
Servings: 12
Calories: 161 kcal
  • 6 eggs , beaten
  • 1/3 cup applesauce (unsweetened)
  • 1/3 cup melted ghee or sub coconut oil or butter
  • 2 cups shredded zucchini about 1 1/2
  • 3/4 cup coconut flour
  • 1/2 cup coconut sugar
  • 2 tsp baking powder
  • 1/2 tsp cinnamon
  • 1/3 cup chocolate chips
  1. Preheat oven to 350 degrees. Line a muffin tin with liners.

  2. In a medium bowl, mix eggs, applesauce, melted ghee (or coconut oil or butter) and zucchini. In a separate bowl, mix coconut flour, coconut sugar, baking powder and cinnamon.

  3. Add dry ingredients to wet. Mix to combine. Fold in chocolate chips. Fill muffin liners and bake for 35 minutes. Let cool before enjoying.

Nutrition Facts
Healthy Paleo Zucchini Chocolate Chip Muffins
Amount Per Serving
Calories 161 Calories from Fat 81
% Daily Value*
Fat 9g14%
Saturated Fat 6g38%
Cholesterol 95mg32%
Sodium 66mg3%
Potassium 173mg5%
Carbohydrates 15g5%
Fiber 3g13%
Sugar 9g10%
Protein 4g8%
Vitamin A 171IU3%
Vitamin C 4mg5%
Calcium 59mg6%
Iron 1mg6%
* Percent Daily Values are based on a 2000 calorie diet.


Do I need to add chocolate chips?

Well technically, no! I do think this brings up the excitement factor just a bit, but you could also substitute raisins or even sunflower seeds, walnuts or pecan pieces if you prefer. If you need allergy-friendly chocolate chips, Enjoy Life Chocolate Chips are dairy-free and almost always in my pantry. Lily’s Chocolate Chips are great it you are keto, too.

Can you substitute another flour for coconut flour

Not really. Coconut flour is very absorbent. Because it’s a grain free flour, it generally can’t be substituted on a 1 : 1 basis. You’ll require more liquid, sometimes more eggs, and I have found that it was initially easier to work with established recipes until getting a feel for how coconut flour works. This said, I’ve been baking with it for years and am very fond of the texture. I also don’t feel that the coconut flavor is very strong.

Can I freeze these Paleo Zucchini Chocolate Chip Muffins?

Yes! Simply bake and cool and store in a freezer-friendly container or bag. These are my favorite reusable silicone food storage bags. No plastic needed!

Healthy Paleo Zucchini Chocolate Chip Muffins - Grain Free, Dairy Free and Paleo

Other Paleo Coconut Flour Desserts

If you are Paleo, grain-free or just looking for healthy desserts – you’ve come to the right place! Be sure to not miss these recipes:

Paleo Sweet Potato Brownies with Tahini

Salted Chocolate Chip Tahini Cookies

Paleo Berry Cobbler

The Best Paleo Vanilla Cupcake Recipe

Paleo Coconut Flour Blondies


super healthy grain free zucchini chocolate chip muffins

Get your kids to eat more veggies!

Grab my Free Guide!

Get my FREE guide to getting your kids to eat vegetables! Perfect for parents who want their kids to eat well.

Check your inbox!

Ingredients for a black bean corn avocado salad

My Kitchen is Your Kitchen!

Get new recipes when they're released, invites to online events and easy, real food in your kitchen.

Check your inbox!

Pin It on Pinterest

Share This