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Whole wheat chocolate muffins recipe with greek yogurt, applesauce, cacao powder and honey. Tasty healthy chocolate muffins for kids. | ifoodreal.com

I had no plans to post these whole wheat chocolate muffins as I was preparing them for kids’ and Alex’s lunch boxes for the week. I guess I was wrong. 12 muffins were gone in 4 hours between 4 of us and in the morning kids were super upset none made to their lunch boxes LOL. There were 3 muffins left before kids went to bed and my oldest one was really upset we ate them.

I remade muffins yesterday and 5 muffins were gone still piping hot – my oldest one had a friend over and between 2 of them they ate 5 muffins. Seriously, what’s up with these muffins?!

Whole wheat chocolate muffins recipe with greek yogurt, applesauce, cacao powder and honey. Tasty healthy chocolate muffins for kids. | ifoodreal.com

I think it’s because these chocolate muffins contain chocolate chips, are super moist and kind of fudgy. I had a vision for fluffy and moist chocolatey muffin and thought Greek yogurt would be perfect for that. I usually use applesauce from my own apple trees, when baking my clean eating banana muffins and chocolate coconut flour muffins, but this time I decided to add Greek yogurt. Not a drop of oil.

OMG, these muffins with Greek yogurt, applesauce, cacao powder, whole wheat flour, honey or maple syrup are…you have to try!

Whole wheat chocolate muffins recipe with greek yogurt, applesauce, cacao powder and honey. Tasty healthy chocolate muffins for kids. | ifoodreal.com

This is what muffins look like once the drizzle has solidified. My youngest one called them cupcakes not muffins. Perfect healthy chocolate muffins for kids!

Another OMG from this recipe I have to share is this BPA-free silicone muffin tin. Seriously, muffins pop out easily even hot. And to clean it is a walk in the park. And it doesn’t take much storage space – you can fold it. Seriously, OvenArt Bakeware, you impressed me and it’s hard to impress me. I mean I’m 33, not 16 anymore.

Whole wheat chocolate muffins recipe with greek yogurt, applesauce, cacao powder and honey. Tasty healthy chocolate muffins for kids. | ifoodreal.com

I drizzled some chocolate on top but you don’t have to. Although it’s almost Valentine’s Day so if you are not a savvy cake baker like me you can make muffins and jazz them up with chocolate drizzle. Or you can turn them into cake. I know this is enough to impress my husband LOL.

Make them and let me know what your kids (husband) think! And may I suggest muffins for grown ups – chocolate quinoa muffins?!

Whole Wheat Chocolate Muffins

Whole Wheat Chocolate Muffins


    Wet Ingredients:
  • 2 large eggs, whisked*
  • 1 cup applesauce, unsweetened
  • 1/2 cup Greek yogurt, plain
  • 1/2 cup + 2 tbsp raw honey or maple syrup
  • Dry Ingredients:
  • 1 3/4 cups whole wheat flour
  • 1/3 cup cacao powder
  • 2 tsp baking powder, aluminum free
  • 1 tsp baking soda
  • 1/4 tsp salt
  • 1/2 cup chocolate chips (I used Enjoy Life)
  • Other:
  • Cooking spray (I use Misto)
  • 3 tbsp chocolate chips (optional)
  • 1 tbsp coconut oil (optional)


  1. Preheat oven to 350 degrees F and spray non-stick 12 muffin tin with cooking spray. Set aside.
  2. In a medium mixing bowl, whisk to combine Wet Ingredients. In another large mixing bowl, stir to combine Dry Ingredients. Add Wet Ingredients to the bowl with Dry Ingredients and gently mix just enough to combine. Do not over mix otherwise muffins won't rise properly. Distribute batter evenly between 12 openings of a tin (I used regular ice cream scoop) and bake for 25 minutes or until a toothpick inserted in the centre comes out clean.** Let muffins cool for about 5 minutes and transfer to a cooling rack to cool off completely.
  3. If you would like to make a drizzle, combine 3 tbsp chocolate chips with 1 tbsp coconut oil in a small bowl, microwave or melt on a stovetop in a small saucepan, and drizzle on top of muffins.
  4. Storage Instructions: Refrigerate in an airtight container for up to 1 week or freeze for up to 3 months.


*One time I ran out of eggs and used 1 large egg + 3 tbsp ground flax seed diluted in 6 tbsp warm water which makes a vegan egg replacer. Very moist and fudgy results - try that. **After baking these muffins a dozen times I noticed they rise more evenly forming a nice dome when baked on the third rack from the bottom (so higher up from the heat). I have a gas oven.


Nutritional Info

Servings Per Recipe: 12

Amount Per Serving = 1 muffin:
Calories: 191.7
Total Fat: 4.9 g
Cholesterol: 35.8 mg
Sodium: 64.1 mg
Total Carbs: 34.8 g
Sugars: 16.9 g
Dietary Fiber: 4.4 g
Protein: 4.9 g

Disclosure: I received free product and was not asked or compensated to review it. All opinions are truly what I think of a product that I like otherwise I don’t even mention it.

This post may contain affiliate links. When you buy a product I make a small commission without any extra cost to you. In return, you can enjoy free recipes as well as savings on your favourite products. I also shared Clean Eating Ingredients I Buy and Kitchen Appliances +Tools I Use. Please buy local, organic and fair trade whenever feasible.


  1. Megan Morris

    Just made these, they’re excellent! Super moist and perfect for my chocolate craving!

  2. Megan Morris

    I saw your newsletter in my inbox this morning with this recipe and knew I had to make them right away for a valentine’s treat for the kids. And me 🙂

    • Olena

      Haha. I know it might sound a bit insane to have muffins for Valentine’s but these are so indulgent…Sometimes simple is best. Most times. Enjoy!:) I think I will end up with another dessert experiment on my Valentine’s Day.

  3. Olga G

    Chocolate muffins are a win win in my book. I like to make my own “sweets” for my kids too. I was super excited when I saw this post. These will have to wait until after love day. I’ve got everything ready for that whole berry coffee cake you posted for tomorrow. 🙂


    Hello! Have you tried these as a bread, or have suggestions for doing so?


  5. Jen

    Deliciousness! Just made these. Happiness is…..
    Love your site. Thanks for all these amazing recipes 🙂

  6. Nikki

    Oh my gosh, these are A-MA-ZING!!!! Instead of all that flour, I used only half a cup and the rest was chocolate protein powder… so so good. Thank you for this recipe!!! <3

  7. Leila

    I made this for my company potluck today. I used oat flour because that is all I had on hand. It was so good and a hit at work. Thanks again for another yummy clean treat.

  8. Amy

    Wow! Love love these, I just made these muffins for my husband’s co-workers and they LOVED THEM! They asked my husband what else I could make for them. So now they want more muffins which is great. I love to make them. Thanks for sharing this recipe.

  9. Andrea

    These are amazing! My son is a very picky eater and would request 2-3 of the for breakfast! Thanks for sharing! Do you think this recipe would work as a basic muffin recipe (minus the coco powder) to add other “fillings” and “toppings” to? They were just the best whole wheat recipe I have tried so far.

    • Olena

      Hi Andrea. Glad to hear that.:) If you are kind of good with baking yes you could do that. However, because you are removing cacao powder it might be too much honey. If you reduce honey, you might need to add a tad bit less flour or maybe not. Just keep that in mind. You might also like these Blueberry Muffins. Easy with any toppings.

  10. kristi

    These are amazing. I just made them! I used paper baking cups and they stuck pretty good. We didnt mind they were so good. Thank you!

    • Olena

      Yay! Spray paper cups with cooking spray well next time. Because all my healthy muffins do not contain much oil I either use silicone muffin tin, cooking spray or parchment paper cups. Never stick. And the key is to let muffins cool down almost completely (silicone tray needs less cooling time). I used paper cups from $ store before and everything sticks to them.

  11. Heather K

    I can’t wait to try these! Are the nutrition facts figured up with or without the chocolate drizzle??

  12. Cristina

    Oh my! What a delicious treat! I absolutely loved the way these turned out. The drizzle is a must. Thanks for the great recipe. I’ll be making them again for sure!

  13. Sarah Wiebe

    Hi Olena!
    I just pulled these out of the oven, they turned out fantastic. I did not have applesauce so I used 1/2 cup coconut oil, and upped the greek yogurt to 1 cup. I know… more calories… but still nutritious! Thank a ton for the recipe!

    • Olena

      Hi Sarah! Good!!! Re: calories. I finally got over the fear of too many calories. As long as I am eating healthy who cares about calories? Seriously?! If I don’t eat extra calories in this chocolate muffin, I will catch up on them somewhere else – my body knows better how many calories I need by sending hunger cues to my brain. Duuuh. And even when you treat yourself to fries or pizza, whatever, as long as we eat healthy majority of time. Our body is not a calculator. Unless you want to compete in a fitness competition of course which makes you a super brave person lol. So enjoy!!!

      • Sarah Wiebe

        So true! Nope, definitely not doing a fitness competition. LOL. I’m on the mindset of eating healthy calories and not empty calories! I’m a breastfeeding mama too so I know I definitely need them! Looking forward to making more of your recipes!

        • Olena

          Exactly! I remember I was SO hungry and thirsty breastfeeding, so eat it up. Enjoy and please leave me a comment the ones you try.


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