These Healthy Chocolate Chip Muffins with whole wheat flour, Greek yogurt, lots of mini chocolate chips and no other refined sugar is perfect to make with the kids!
Reader’s Review
We love these muffins. Made them for breakfast and my kids loved them. They are so soft, fluffy, and delicious. Thank you Olena!!!
Kayla
All I can say about these healthy chocolate chip muffins is to double the recipe. They are light, fluffy, flavorful and loaded with mini chocolate chips.
These healthy muffins are perfect for a healthy snack, dessert or even breakfast!
Why You’ll Love This Recipe
- Kids love them: Kids love anything “muffins” and chocolate chips help a lot!
- Better ingredients: Made with only 1/3 cup maple syrup, whole wheat flour and yogurt for extra protein. Minus hydrogenated oils and refined sugar found in store-bought muffins.
- Simple ingredients: I created this recipe with everyday staples so you can whip up this healthy chocolate chip muffin recipe when the mood strikes.
- Easy recipe: One bowl recipe and ready in less than 30 minutes.
Ingredients for Healthy Chocolate Chip Muffins
- Yogurt: Regular yogurt or Greek yogurt with any fat content. I used 2% previously and now tested recipe with non-fat yogurt with good results. Some readers have subbed sour cream instead. I also think replacing yogurt with pumpkin puree or mashed banana on 1:1 ratio should be fine.
- Egg: You can sub egg with chia seed egg, flax egg or 1/4 cup applesauce or mashed banana.
- Milk: Any milk works. I used dairy-free unsweetened almond milk.
- Maple syrup: I like to add pure maple syrup because I like its taste. You can use any liquid sweetener like honey, brown rice syrup, or agave.
- Flour: Any whole grain flour like whole wheat flour, spelt flour, white whole wheat flour or whole wheat pastry flour should be fine. You could also try to swap with about 3 cups of all-purpose flour.
- Oil: The best choice is mild tasting oil like avocado oil, light olive oil, grapeseed oil or melted coconut oil.
- Chocolate chips: I prefer mini chocolate chips because you get more in every bite and they look super cute. But semi sweet or dark chocolate chips work too.
How to Make Healthy Chocolate Chip Muffins
Preheat oven to 425 degrees F, line muffin pan with parchment paper liners and spray with cooking spray. Set aside.
- Whisk wet ingredients: In a large bowl, whisk the egg. Then add the yogurt, oil, maple syrup, milk, vanilla, baking powder and baking soda.
- Finish the batter: Add flour and gently stir until well incorporated. Muffin batter will be thick. Add chocolate chips and give a few more gentle stirs. Then divide batter between 12 muffin cups of a regular size muffin tin. Sprinkle extra chocolate chips, if you want.
- Bake at 425 F for 7 minutes: A higher baking temperature in the beginning will take care of high muffin tops.
- Reduce heat to 375 F and bake for another 10-11 minutes: Or until a toothpick inserted in the centre comes out clean. No need to remove muffins from the oven to wait for the temperature to come down. Then remove muffins and let them cool on a wire rack for about 5 minutes.
Tips for Best Results
Here are my top tips and tricks for the best healthy chocolate chip muffins in the world!
- Spoon and level your flour: This is worth repeating anytime we are baking muffins. Spoon your flour into your measuring cup, rather than scooping, then level off with a knife.
- Do not over mix the batter: Otherwise muffins will be tough and rubbery.
- This silicone muffin tin makes muffins slide out like butter.
- No chocolate chips? If you have a chocolate bar, chop it into chunks.
Variations
- Cinnamon: Just a pinch of cinnamon can add a subtle warmth.
- Nutmeg: Not a fan of cinnamon, use a pinch of nutmeg for a nutty warm taste.
- Sea salt: A pinch of sea salt included in the batter can help bring out the flavor.
- Sugar topping: Sprinkle a small amount of cane sugar, brown sugar or coconut sugar on top of each chocolate chip muffin before baking.
- Orange zest: A small amount of orange zest will give these muffins a nice zing.
How to Store
Store: Store muffins at room temperature for up to 3-4 days. I like to place them in a resealable plastic bag and keep a bit of an opening to prevent condensation build up and complete moisture loss.
Another option to absorb excess moisture build up is to line the bottom of your container with a paper towel, then place another paper towel on top of the muffins.
Freeze: Store in an airtight container or a freezer safe, resealable bag for up to 3 months in the freezer. Muffins will defrost on the counter within 3-4 hours.
Storage Tip
Check out my detailed posts how to store muffins and how to freeze muffins for all my best tips and tricks.
FAQs
You may be able to use 1:1 ratio of all-purpose gluten free flour to replace whole wheat flour. I would also add a splash of milk then. Coconut flour or almond flour will not work. You can also use oat flour by weight, keeping in mind that 1 cup of oat flour weighs 90 grams and 1 cup of wheat flour weighs 120 grams.
Yes, bake mini chocolate chip muffins for 10-12 minutes total. First on high heat for 3-4 minutes, and then reduce heat for remaining time until toothpick inserted comes out clean.
More Healthy Muffin Recipes to Try
- Greek yogurt muffins
- Healthy chocolate muffins
- Chocolate veggie muffins
- Healthy banana chocolate chip muffins
- Dubai chocolate muffins
- Healthy pumpkin chocolate chip muffins
Healthy Chocolate Chip Muffins
Equipment
Ingredients
- 1 large egg
- 1 cup plain yogurt or Greek yogurt, any fat %
- 1/4 cup avocado oil, or any mild tasting oil
- 1/3 cup maple syrup or honey
- 1/2 cup any milk, I used unsweetened almond milk
- 1 tablespoon pure vanilla extract
- 2 teaspoons baking powder
- 1/4 teaspoon baking soda
- 1/4 teaspoon salt
- 2 1/3 cups whole wheat or spelt flour
- 3/4 cup mini chocolate chips
- Cooking spray, I use Misto
Instructions
- Preheat oven to 425 degrees F and spray muffin tin with cooking spray. Set aside.
- In a large mixing bowl, whisk the egg for 10 seconds. Add yogurt, oil, maple syrup, milk, vanilla, baking powder, baking soda, salt and whisk to combine.
- Add flour and gently stir until well incorporated, batter will be thick. Do not over mix otherwise muffins will be tough.
- Add chocolate chips and give a few more gentle stirs. Then, using an ice cream scoop, divide batter between 12 openings.
- Bake for 7 minutes in preheated to 425 degrees F oven. Reduce heat to 375 degrees F (no need to wait for oven to cool off) and bake for another 10-11 minutes or until a toothpick inserted in the centre comes out clean.
- Remove from the oven, let muffins cool for about 5 minutes and transfer to a cooling rack to cool off completely.
Notes
- Store: Store in a cool dry place for up to 3-4 days.
- Freeze: Freeze in an airtight container for up to 3 months. Thaw on the counter for 2-3 hours.
Nutrition
Nutrition information is automatically calculated, so should only be used as an approximation.
If i want ti use white flour instead, How much white flour do i use in this recipe? The measurement is given but i didnt quite understand it.
Thank you
It will be 3 cups of white flour.
The best spelt muffin I have come across the internet!!! Moist and so soft!!! Super Yummmm!!!
Thanks for sharing your positive feedback Arlene!
The muffins are good but I only needed about nine mins to cook and it was perfect. Definitely recommend.
This recipe is magic. I never seem to have every ingredient in hand at one time, but no matter which substitutuin I make, they are always amazing! I’ve subbed mayo or sour cream for the Greek yogurt (not as healthy, I know), flax egg for the egg, coconut oil for the olive oil, maple syrup or even a bit of molasses for the honey. Always use dark chocolate chips ..and they are always perfect. My pickiest eater would eat then every day if I kept them stocked! Thank you!
Hi Michelle! It made my day that you called my healthy muffins MAGIC! Thanks!
Best. Muffins. Ever! Everyone loves them. Super moist. Super easy to make. So glad I came across your website. Thanks from a fellow Vancouver island chick 🙂
Oh yay. Where do you live?
I made these as mini muffins. I followed the recipe exactly and then baked them for 10 minutes. I can’t believe something I baked actually came out so delicious. They are incredibly moist and chewy. Thanks for the recipe!
Why not?!:) If you follow recipes for a while, you get a hang of cooking and can be a very good cook yourself. Enjoy and you are welcome!
These turned out great! I substituted apple sauce for the olive oil and they turned out perfect. I wasn’t sure about the tablespoon of baking powder because I’ve never used that much in a recipe, but it worked! 🙂 They were light, fluffy and delicious. I also used Whole Milk Greek Yogurt because my little one needs all the protein and fats she can get!
Awesome! Glad you enjoyed and followed the recipe!:)
I just made these for my very picky toddler and he loves it! He keeps saying “yum! Thank you mommy!” I subbed a chia seed egg for the regular egg. I’d like to make them again and play with the proportions to incorporate some rolled or quick oats. Thanks for the recipe!
These were delicious and moist. I used white flour because my kids would know it’s whole wheat right away. Followed teh recipe and didn’t over stir. Muffins were amazing!
The last two times I tried making muffins I failed miserably, but looking at these now… It’s time to try again.
IF you follow the recipe and use exact ingredients, you will be fine this time.:)