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Home » Recipes » Snacks

Chocolate Chip Oat Flour Muffins

Last Modified: Mar 15, 2024 · Published: Dec 11, 2023 by Janessa · 6 Comments
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Made entirely with oat flour, these chocolate chip muffins are made from simple ingredients for a gluten free twist that rivals your favorite bakery muffin. Packed with chocolate chips and topped with crunchy sugar, you'll love their moist and fluffy crumb.

Jump to:
  • The Ingredients
  • The Method
  • Leftovers and Storage
  • Make it Your Own
  • Serving Ideas
  • More Oat Flour Recipes...
  • Recipe Card
  • Comments
Close up of a muffin with a bite taken out.

Experimenting with oat flour has been a fun challenge in my baking journey.

Made from a single, wholesome ingredient: oats, it is an accessible gluten-free alternative that can be found in most grocery stores.

I first began using oat flour in classic cookie recipes and then moved on to gluten-free muffins.

After a few rounds of experimentation, I perfected these oat flour apple muffins and they have become my base recipe for crafting various delectable, whole-grain muffins, including Brendan's favorite - chocolate chip oat flour muffins.

Packed with chocolate chips and boasting a tender, melt-in-your-mouth texture, these muffins have secured their place as a regular in my baking rotation. (As have this lemon poppyseed version).

They easily rival your favorite bakery chocolate chip muffins with regular flour (as do these blueberry ones), and I'm thrilled to share this recipe with you.

If you're new to oat flour baking, fret not. I'll give you lots of helpful tips to ensure your chocolate chip oat flour muffins turn out great.

So let's make some oat flour chocolate chip muffins!

The Ingredients

Ingredients for oat flour chocolate chip muffins.
  • Oat Flour- Ensure that you are using certified gluten free oats/oat flour if you need the recipe to be gluten-free.
    • I recommend sifting the oat flour first if it is lumpy so that you don't have to overmix the muffins.
    • For best results, use store-bought oat flour.
    • To Measure Oat Flour: If you have a kitchen scale, that is best for most accurate measurements of oat flour. But if you are measuring by hand, I have found that I can consistently achieve 120 g per cup of oat flour by scooping the oat flour into a measuring cup, lightly packing it down and then levelling off the top. See this oat flour snickerdoodles post for more details.
  • Baking Soda and Baking Powder- Oat flour isn't structurally the same as regular flour so it needs a little extra help to achieve the same lift.
  • Fine Sea Salt
  • Cinnamon- This can be omitted but the warmth that a bit of cinnamon adds is that little something that makes these muffins next level, so I highly recommend keeping it.
  • Pure Maple Syrup- Honey or agave will also work but I don't recommend using a granulated sweetener for this recipe. For more info, check out this post on Maple Syrup Substitutes.
  • Avocado Oil- Melted coconut oil, canola oil or olive oil can be used instead. If using melted coconut oil, it is imperative that all of the ingredients be at room temperature so that it doesn't harden in the batter.
  • Greek Yogurt- This is a key for structure and moisture. For an alternative, you can use sour cream, coconut yogurt for dairy free or check out this post on Greek yogurt substitutes.
  • Vanilla Extract- For flavor!
  • Eggs
  • Chocolate Chips- I typically use semi-sweet chocolate chips in these muffins but you can use milk, white, dark or a combination.
  • Coarse Sugar- Optional: Sprinkle on for a crunchy topping a la your favorite bakery muffin.

The Method

1. Mix dry ingredients. In a large mixing bowl, whisk together the oat flour, baking soda, powder, salt and cinnamon.

Dry ingredients in a large mixing bowl.

2. Mix wet ingredients. In a medium bowl, combine the maple syrup, oil, Greek yogurt, eggs and vanilla extract.

Wet ingredients in a medium mixing bowl.

3. Combine. Pour the wet mixture into the dry and stir until just combined. For best texture, it is best to not over-mix muffin batter.

Wet ingredients added to dry.

Fold in the chocolate chips.

Chocolate chips folded into batter.

4. Divide into muffin tins. Line a regular muffin tin with 8 paper liners or silicone muffin cups. Fill the muffin liners nearly to the top with the muffin batter. Sprinkle about ¼ teaspoon of coarse sugar over each. I also like to save a few chocolate chips for pressing into the top for looks!

Muffin batter divided out into tins.

5 . Bake. Bake at 375 F for 20-25 minutes until a toothpick inserted comes out mostly clean and the muffin bounces back slightly when you press on the center.

Chocolate chip muffins on a cooling rack.

6. Cool and enjoy. Allow these moist gluten-free chocolate chip muffins to cool in the muffin pan for 5 minutes and then move to a wire rack to cool completely (or enjoy them while they are warm!).

Leftovers and Storage

To Store: Cool oat flour chocolate chip muffins completely and then store in an airtight container at room temperature for up to 3 days.

To Freeze: Cooled muffins can be frozen for up to 3 months.

Hand holding a muffin with a bite taken out.

Make it Your Own

Mini Muffins: Line a mini muffin tin for enough for 24-30 muffins and fill liners nearly full. Bake for 10-12 minutes.

Use Other Favorite Mix-Ins: In place of the chocolate chips, use add ins such as:

  • Walnuts
  • Pecans
  • Peanut Butter Chips
  • White Chocolate Chips
  • Dried Cranberries
Oat flour chocolate chip muffins stacked on top of one another.

Serving Ideas

These fluffy chocolate chip muffins make for a delicious snack or easy breakfast for busy mornings (especially alongside some Egg White Bites Recipe and maybe an Avocado Spinach Smoothie).

Can I Use Homemade Oat Flour?

For best results, I strongly recommend using store-bought oat flour as the consistency of homemade oat flour can be variable.

More Oat Flour Recipes...

  • Spoon dipping into a mug of oat cake.
    Oat Mug Cake
  • Stack of chocolate chip cookies made with oat flour.
    Oat Flour Chocolate Chip Cookies
  • Piece of oat flour bread being buttered.
    Oat Flour Bread
  • Strawberry crisp with oatmeal topping in a bowl.
    Strawberry Oatmeal Crisp

Recipe Card

Chocolate chip muffins with a bite taken out.

Oat Flour Chocolate Chip Muffins

Made entirely with oat flour, these chocolate chip muffins are naturally sweetened, gluten free, and are moist with a fluffy crumb.
5 from 33 votes
Print Pin Rate
Prep Time: 20 minutes minutes
Cook Time: 20 minutes minutes
Total Time: 40 minutes minutes
Servings: 8
Calories: 276kcal

Ingredients

  • 1 and ¼ cup oat flour certified Gluten Free, if needed
  • ½ teaspoon baking powder
  • ½ teaspoon baking soda
  • ½ teaspoon cinnamon
  • ¼ teaspoon salt
  • ⅔ cup Greek yogurt
  • ¼ cup avocado oil
  • 1 egg
  • 3 tablespoon pure maple syrup
  • 1 teaspoon vanilla extract
  • 1 cup chocolate chips
  • 2 teaspoon coarse sugar optional
US Customary - Metric
(Prevent your screen from going dark)

Instructions

  • Preheat the oven to 375 °F. Line a muffin tins with enough for 8 muffins.
  • In a large bowl, whisk together oat flour, baking soda, baking powder and salt.
  • In a medium bowl, combine maple syrup, oil, Greek yogurt, eggs and vanilla.
  • Pour the wet ingredients into the dry and mix until just combined. Fold in the chocolate chips.
  • Fill the prepared muffin tin liners nearly full and sprinkle ¼ teaspoon of coarse sugar on each. Bake for 20-25 minutes until a toothpick poked in the center comes out mostly clean or the centers bounce back when lightly pressed.
  • Allow to cool in tins for 5 minutes and then remove to a wire rack to allow to cool completely.

Notes

Leftovers
Cool leftover muffins completely and store in an airtight container in the refrigerator for up to 3 days or freeze for up to 3 months.
Mini Muffins
Line a mini muffin tin for 24-30 muffins and fill liners nearly full. Bake for 10-12 minutes.

Nutrition

Calories: 276kcal | Carbohydrates: 31g | Protein: 5g | Fat: 15g | Saturated Fat: 5g | Polyunsaturated Fat: 2g | Monounsaturated Fat: 6g | Trans Fat: 0.004g | Cholesterol: 21mg | Sodium: 186mg | Potassium: 176mg | Fiber: 1g | Sugar: 17g | Vitamin A: 31IU | Vitamin C: 0.01mg | Calcium: 70mg | Iron: 1mg
Did you make this recipe?Let me know what you thought in the comments below!

Want to learn more about oat flour? Check out these resources!

  • The Ultimate Guide to Oat Flour
  • Oat Flour vs. Wheat Flour
  • The Best Oat Flour Recipes
  • Oat Flour Cookie Tips
  • Oat Flour Muffin Tips
  • Honey roasted cashews being poured out of a bowl.
    Honey Roasted Cashews
  • Baked oats in a ramekin topped with berries and nut butter.
    Microwave Baked Oats
  • Stack of copycat eat-more bars.
    Eatmore Bars (Healthy Copycat)
  • Hand holding a scoop of protein powder.
    Pea Protein Powder Recipes
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Comments

    5 from 33 votes (31 ratings without comment)

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  1. Lauren M. Alfieri says

    March 31, 2024 at 7:58 pm

    5 stars
    Delicious, moist, and best of all, no one will know that these are gluten free. I’ve made them several times (veg oil instead of avocado and omitted cinnamon) and always get asked for the recipe. These definitely won’t disappoint!

    Reply
    • Janessa says

      April 01, 2024 at 6:24 am

      I'm so glad you like muffins, Lauren! Thank you for your kind review.

      Reply
  2. Em says

    April 02, 2024 at 3:00 pm

    I too swapped out the avocado oil for vegetable oil. I also swapped out Greek yogurt for Balkan style. Next time I will use Greek yogurt because the batter was too thin and the chocolate chips sunk to the bottom.

    Reply
    • Janessa says

      April 02, 2024 at 8:35 pm

      Thank you for your helpful comment, Em!

      Reply
  3. Linda Soughan says

    October 19, 2025 at 2:56 am

    5 stars
    These muffins are just delicious - no one will know they are gluten free! Will definitely make them again!

    Reply
    • Janessa says

      October 19, 2025 at 12:18 pm

      I'm so glad you liked this recipe, Linda!

      Reply
Janessa

Hi, I'm Janessa and I'm passionate about sharing recipes that are made with wholesome ingredients, are quick and easy and most importantly, delicious!

More about me →

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