Chocolate Zucchini Muffins (Gluten-Free)

These chocolate zucchini muffins are gluten-free, dairy-free, and packed with melty chocolate chips. Moist, fudgy, and ready in one bowl. The tastiest way to use up extra zucchini!

Close up shot of chocolate zucchini muffins with chocolate chips on a white tray.

Is there really zucchini in these muffins?

The Quick Answer: Yes, you really can’t taste the zucchini. These chocolate zucchini muffins are gluten-free, dairy-free, and low FODMAP, made in one bowl with sorghum flour, cocoa, and a generous handful of dark chocolate chips. Moist, fudgy, and the kind of “healthy-ish” treat you’ll actually crave.

The Instagram Poll That Started It All

With two freshly picked zucchinis from my Lettuce Grow garden, I took a photo, then polled you on Instagram asking what zucchini recipe to make first. Your choices? Zucchini muffins/bread, zucchini fritters, or zucchini boats. Muffins won.

You chose wisely because these gluten-free zucchini muffins are divine! Perfect for breakfast (paired with some fruit and protein), for an afternoon treat with coffee or tea, or just because you’re craving chocolate. I hear you!

Why You’ll Love These Chocolate Zucchini Muffins


  • Double chocolate for the win: Cocoa + chocolate chips = love.
  • The perfect texture: Moist, fudgy, and oh-so-delicious.
  • Super easy: One bowl, 10-minute prep, no mixer needed.
  • Gluten-free, but you’d never know. Also, dairy-free and low FODMAP.
Gluten free chocolate zucchini muffins in white liners in a cupcake baking sheet.

Gluten-Free Chocolate Zucchini Muffin Ingredients

Just the basics, plus a little zucchini and chocolate magic.

  • Zucchini: Grated with the skin on and squeezed to remove excess liquid.
  • Gluten-free flour: I used a combo of sorghum and tapioca flour (no gums). Experiment with your favorite GF flour blend. Keep in mind that if you use one with xanthan gum, the texture may change.
  • Eggs: Two large eggs. Make these with chia or flax eggs for a vegan version.
  • Avocado oil: Or any neutral, heart-healthy oil you like.
  • Maple syrup: Just enough to sweeten things up.
  • Cocoa powder: I prefer CocoaVia for its extra cocoa flavanols, but use whatever unsweetened cocoa powder you have on hand.
  • Dark chocolate chips: The more, the merrier.
  • Vanilla, baking soda, and salt: The usual baking suspects.
Parchment lined tray with ingredients to make gluten-free zucchini muffins.

How to Make Chocolate Zucchini Muffins

  1. Grate the zucchini and gently press it between paper towels to remove excess liquid.
  2. Mix wet ingredients: eggs, oil, maple syrup, vanilla. Stir in the zucchini.
  3. Add dry ingredients: gluten-free flour, cocoa, baking soda, and salt. Stir well.
  4. Fold in the chocolate chips.
  5. Scoop into muffin tins. Bake at 350ºF for 20 minutes.
  6. Cool slightly… or don’t. These are fantastic, straight out of the oven, with all the melted chocolate deliciousness!
Close up shot of a gluten free chocolate zucchini muffin with melty chocolate chips.

🩷 Dietitian Nutrition Notes

Let’s keep it real. These gluten-free zucchini muffins aren’t kale salad.😉 But for a treat? They’re dietitian-approved!

Each muffin has about:

  • 250 calories
  • 30g carbs (2g fiber, 13g sugar)
  • 14g fat (only 4g saturated)
  • 3g protein

And yeah, they’ve got zucchini…but don’t fool yourself into calling it a vegetable serving. As Mr. Spicy says, “They’re delicious, but I can’t taste the zucchini.” 🤷‍♂️

Still, these are lower in sugar and saturated fat than most muffins, so they definitely earn the healthy-ish badge.

Storage

  • On the counter: Store in an airtight container for up to 3 days.
  • Freezer stash: Freeze in a sealed container or bag for up to 3 months. Thaw at room temp or warm in the microwave for cozy, melted chocolate vibes.

Chocolate Zucchini Muffins FAQ’s

Yep! Swap the sorghum flour and tapioca starch for 1 1/2 cups all-purpose flour if you’re not gluten-free.

I use a sorghum and tapioca combo (similar to my 3-ingredient gluten-free flour blend) with no gums for the best texture. A store-bought GF blend works too: just know the texture may change slightly if it contains xanthan gum.

Yes, freeze in a sealed container or bag for up to 3 months. Thaw at room temp or pop in the microwave for that fresh-baked, melty chocolate feel.

Yes, made as written, they’re low FODMAP and dairy-free too.

Chocolate muffins on a white marble tray.

Chocolate Zucchini Muffins (Gluten-Free)

Chocolate zucchini muffins (gluten-free, dairy-free, low FODMAP)with chocolate chips are moist, fudgey, and so delicious! Make them in one bowl for an easy breakfast, snack, or treat!
EA Stewart, RD
5 from 1 vote
Print Recipe Pin Recipe
Prep Time: 10 minutes
Cook Time: 20 minutes
Total Time: 30 minutes
Servings: 12

Ingredients

Instructions

  • Pre-heat your oven to 350 F. Line a 12 cup muffin tin with paper or silicon liners.
  • Combine eggs, oil, maple syrup, and vanilla extract in a mixing bowl. Whisk or stir well to combine the ingredients. Then add the zucchini and stir.
  • Add the sorghum and tapioca flours along with baking soda and salt to the wet ingredients. Stir well with a fork. Then add the chocolate chips and stir.
  • Divide the batter (it will be thick) equally into the 12 lined muffin tins. Bake for 20-25 minutes or until a toothpick inserted into the muffins comes clean.
  • Allow to cool for 10 minutes. Enjoy!

Notes

Ingredient Swaps & Additions
  • Use 1 1/2 cups of your favorite gluten-free flour blend in place of the sorghum flour and tapioca flour. Please note that the texture may vary if your flour blend contains xanthan gum.
  • Don’t follow a gluten-free diet? Try all-purpose flour in place of GF flours.
  • Swap avocado oil with high-oleic expeller-pressed sunflower oil or organic canola oil.
  • Suggested add-ins: nuts, ground cinnamon.

Nutrition

Serving: 1muffin | Calories: 246kcal | Carbohydrates: 29g | Protein: 3g | Fat: 14g | Saturated Fat: 4g | Polyunsaturated Fat: 2g | Monounsaturated Fat: 7g | Trans Fat: 0.003g | Cholesterol: 27mg | Sodium: 120mg | Potassium: 266mg | Fiber: 2g | Sugar: 13g | Vitamin A: 119IU | Vitamin C: 7mg | Calcium: 59mg | Iron: 1mg
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Got more zucchini on hand?

🧁Let’s Chat! Have you made zucchini muffins before? Are you team double chocolate all the way, or do you like yours classic and cozy? Tell me what zucchini recipe to make next in the comments—I’d love to hear!

5 from 1 vote

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4 Comments

    1. Hi Hazel! I haven’t made these with almond flour, but you could certainly try! If you do, I would start with 1 1/2 cups of almond flour in place of the sorghum flour + tapioca starch. If you try it, please let me know how they turn out!

  1. We made these gluten-free zucchini muffins for a beach potluck and everyone loved them!

    1. Hi Maria. I’m so happy you made the recipe and loved the chocolate zucchini muffins! Thanks for letting me know!