Paleo Pumpkin Zucchini Muffins (or Bread)

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This Paleo pumpkin zucchini muffins recipe is a healthy breakfast that’s easy to make. These muffins are gluten-free, dairy-free and can easily be made into healthy pumpkin zucchini bread!

Front view of 5 Paleo Pumpkin Zucchini Muffins with chocolate chips


Is anyone else teetering between sadness that summer is ending and elation about the beginning of fall? I feel like a great battle of emotions is taking place in my heart right now. I love splashing in the pool, and hiking in the brisk fall air. Both flip flops and a warm pair of boots make my feet sing. Am I ready to give up tomatoes and watermelon for apples and pomegranates?! Oh the war within!

Since making decisions is completely overrated (and something I am nearly incapable of doing), I created this healthy Pumpkin Zucchini Muffin recipe so you don’t have to! Today summer and fall collide to make something beautiful…Paleo Pumpkin Zucchini Muffins! Can’t decide between summer and fall,  no problem at all!

Lets embrace the summer-fall duality with this muffin recipe. Loaded with veggies, these muffins are gluten-free, dairy-free and paleo!

overhead view of 8 Paleo Pumpkin Zucchini Muffins or Bread

Paleo Pumpkin Zucchini Muffins: Ingredients & Substitutions 

I really do not recommend making any substitutions in this recipe! Especially do not tamper with the kind and amount of flour. Paleo baking is a fine art, and I changing the flours in any way may result in a not-so-great muffin!

Overhead view of the ingredients in this healthy pumpkin zucchini muffins recipe
  • Pumpkin puree. Homemade pumpkin puree or canned can be used in this recipe. Please be sure to use a pure variety that has only one ingredient: pumpkin. Do not use pumpkin pie filling.
  • Coconut sugar. Any granulated sugar works well in this recipe. Just be sure to choose a variety that complies with your dietary needs.
  • Coconut oil. Butter or ghee are tasty substitutes for coconut oil.
  • Chocolate chips. These can be left out entirely. Also feel free to substitute your favorite chip variety, cinnamon, white chocolate, butterscotch, caramel, peanut butter, the sky’s the limit! For a paleo variety try these Enjoy Life Foods morsels.
  • Pumpkin Pie Spice. Use store bought or make your own with this recipe: homemade pumpkin pie spice.
front view of a stack of three Pumpkin Zucchini Muffins, the top one has a bite taken out of it

How to Make Pumpkin Zucchini Muffins

These pumpkin zucchini muffins are a breeze to make! So let’s walk through the process together

Use a Vitamix & Blend the Wet Ingredients

These muffins are best when the batter is made in the Vitamix (surprise surprise)! Whenever you are making batter in the Vitamix, it’s important to start by adding your wet ingredients first!

Start by adding the pumpkin and the zucchini and blending until smooth. This will ensure the zucchini is completely blended (see the photo on the right below, it’s undetectable.

two photos showing How to make Pumpkin Zucchini Muffins

Add the dry ingredients 

Next, add the dry ingredients and blend until combined! As you can see in the middle photo, the batter gets pretty thick (which is how it should be)! So you may need to scrape the sides and keep blending until the mixture is homogenous (uniform throughout).

two photos showing How to make Pumpkin Zucchini Muffins

3. Stir in the Chocolate Chips

Chocolate chips are optional (I guess)! But if you would like to add them be sure to stir them into the batter by hand (do not blend).

two photos showing How to make Pumpkin Zucchini Muffins

Fill the muffin pan 

I recommend using a nonstick muffin tin to bake these Pumpkin Zucchini Muffins. Such a pan crisps the outsides beautifully. Please do not use muffin liners because they are difficult to remove from the baked muffins/

Grease the muffin pan well using your favorite method. Use a 1/4 cup measuring cup to fill the wells of a standard muffin tin with the pumpkin zucchini muffin batter. The wells should be filled about 3/4 full to prevent the muffins from overflowing!

After filling each well, I like to put a few extra chocolate chips on top for good measure.

Up close overhead view of a muffin pan filled with Pumpkin Zucchini Muffins batter before being baked.

Bake the Pumpkin Zucchini Muffins

Once you have finished filling the muffin tin, bake the Pumpkin Zucchini Muffins in the preheated oven. The muffins are done when the tops have set and spring back when touched!

overhead view of a muffin pan with Pumpkin Zucchini Muffins in it just after baking

Let cool & remove

Let the muffins cool in the pan for about 5 minutes before removing them and transferring them to a wire rack to cool the rest of the way. If they are removed too early they will likely fall apart in the transferring process.

Use a spoon or knife to release the edges of the pumpkin zucchini muffins from the pan before removing them completely. This will ensure they hold their shape well!

Store/freeze

Store leftovers in an airtight container in the refrigerator for up to 1 week.

These healthy Pumpkin Zucchini Muffins also freeze well. Make sure they are cooled completely, then put them in a ziplock bag or freezer-friendly container and store them in the freezer for up to 2 months.

To eat, simply reheat in the microwave for about 30-60 seconds (depending on the number of muffins), or warm in the oven!

Up close overhead view of Pumpkin Zucchini Muffins on a cooling rack

Recipe FAQs

Do I need to shred the zucchini?

I just chopped the zucchini into large pieces because the Vitamix makes it undetectable. However, for measuring purposes I recommend chopping or shredding the zucchini so you use the correct amount.

Can I make this into pumpkin zucchini bread?

This recipe can easily be made into bread. Simply bake the batter in a 9×5″ or 8×3″ pan for 35-45 minutes at 350 degrees F!
I recommend lining the loaf pan with aluminum foil and then greasing the foil for easy removal! Let the bread cool in the pan for at least 10 minutes before removing.

Overhead view of a Pumpkin Zucchini Muffin with a bite taken out of it so you can see the melty chocolate on the inside

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Paleo Pumpkin Zucchini Muffins Recipe

Laura
This Paleo pumpkin zucchini muffins recipe is a healthy breakfast that's easy to make. These muffins are gluten-free, dairy-free and can easily be made into healthy pumpkin zucchini bread!
4.95 from 17 votes
Course Breakfast, Snack
Cuisine American
Servings 12 muffins
Calories 126
Prep Time5 minutes
Cook Time25 minutes
Total Time30 minutes

Ingredients 
 

Instructions 

  • Preheat the oven to 375 degrees F. Grease a standard muffin pan, set aside.
  • Combine coconut flour, almond flour, cinnamon, pumpkin pie spice baking soda, baking powder and salt in a small bowl, set aside.
  • Put zucchini, pumpkin, coconut sugar, and coconut oil into your blender (Vitamix) or food processor and blend until smooth.
  • Add the vanilla and apple cider vinegar and blend until combined.
  • Add the dry ingredients and blend until combined.
  • Add eggs all at once and blend until just combined.
  • Mix in chocolate chips (or cinnamon chips) by hand.
  • Scoop the batter into the prepared muffin pan.
  • Bake for 20-25 minutes until a toothpick inserted into the center of each muffin comes out clean. (To make into bread bake in 9×5” loaf pan for 35-40 minutes!)

Video

Notes

Ingredient substitutions

  • Pumpkin puree. Homemade pumpkin puree or canned can be used in this recipe. Please be sure to use a pure variety that has only one ingredient: pumpkin. Do not use pumpkin pie filling.
  • Coconut sugar. Any granulated sugar works well in this recipe. Just be sure to choose a variety that complies with your dietary needs.
  • Coconut oil. Butter or ghee are tasty substitutes for coconut oil.
  • Chocolate chips. These can be left out entirely. Also feel free to substitute your favorite chip variety, cinnamon, white chocolate, butterscotch, caramel, peanut butter, the sky’s the limit! For a paleo variety try these Enjoy Life Foods morsels.
  • Pumpkin Pie Spice. Use store bought or make homemade pumpkin pie spice!
  •  

To make into bread: 

These healthy pumpkin muffins can easily be made into pumpkin zucchini bread! Simply bake the batter in a 9×5″ or 8×3″ pan for 35-45 minutes at 350 degrees F! 

Store/freeze

Store leftovers in an airtight container in the refrigerator for up to 1 week.
These healthy Pumpkin Zucchini Muffins also freeze well. Make sure they are cooled completely, then put them in a ziplock bag or freezer-friendly container and store them in the freezer for up to 2 months.
To eat, simply reheat in the microwave for about 30-60 seconds (depending on the number of muffins), or warm in the oven!

Nutrition

Serving: 1muffin | Calories: 126kcal | Carbohydrates: 13.7g | Protein: 4g | Fat: 6.8g | Saturated Fat: 3.4g | Polyunsaturated Fat: 0.4g | Monounsaturated Fat: 1g | Cholesterol: 62mg | Sodium: 184mg | Potassium: 77mg | Fiber: 3.7g | Sugar: 8g | Vitamin A: 2750IU | Vitamin C: 1.4mg | Calcium: 30mg | Iron: 0.8mg

Nutrition information is automatically calculated, so should only be used as an approximation.

Did you enjoy this recipe? Have a question? Leave a comment below!

More delicious recipes! 

I have lots of delicious ideas for you if you’re looking to make something with pumpkin, besides this paleo pumpkin bread of course!

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90 Comments

  1. 5 stars
    I tried brown sugar instead and it turned out wonderful! It is so moist and sweet but not too sweet! Thank you for this wonderful recipe! I doubled the recipe and baked it in a 9×13 pan and spread it with melted chocolate chips!

  2. 5 stars
    I was skeptical ( I have a picky 12 month old) and just slightly warm I gave her a piece, she ate it but didn’t want anymore. Two days later she was shoving chunks in her mouth and hasn’t refused one since! She is obsessed. I also added spinach and blueberries. Next I will try more berries!

  3. 5 stars
    These were light and tasty! I have a gas oven and needed to set the timer another 10 mins from what the recipe stated, but they were amazing! Thanks for the yummy recipe!

    1. 4 stars
      I made this as a loaf instead of muffins and it fell apart. I even cooked it for 50 min. The kids and I just ate it in a bowl instead because it was so tasty! Just didn’t work as a loaf for me. I will make it again as muffins next time.