These Healthy Chocolate Chip Muffins are whole wheat, filled with cream cheese, and are moist, chocolaty and only 150 calories!

Why You Will LOVE This Recipe
- They have creamy-cheesy-filled goodness. Chocolate muffins that are DOUBLED UP on the chocolate goodness.
- They are only 150 calories. HOLD DA PHONE.
- Chocolate muffins, like the other chocolate paleo muffins, are SO healthy that they make the muffin man hide in his processed-1-billion-calorie-muffin shame. Whatever that means.
- These healthy chocolate chip muffins make you feel like you should wear stretchy pants while you eat them. Except, FOOLED YOU, you can eat 4.6 of them in yo’ SKINNY JEANS. Ninja chocolate muffins.
Variations
Not happy with just cream cheese and chocolate, are you? Want to try something different, do you? Well, here are a few options for you:
Cinnamon: Add a bit of heat to the muffins with a dash of cinnamon. Spicy chocolate would be a great one to try for Valentine’s Day
Berries: Blueberries or raspberries — fresh or frozen — would add a fruity twist to the muffins. And berries go really well with cream cheese and chocolate, so both would welcome the berries with open arms. So to speak.
Nuts: Chopped almonds or pecans can be added to the batter or sprinkled on top for a crunchy texture
Swirl: Why stop at cream cheese? Why not add in some Nutella or peanut butter?
Lemon: Add some lemon zest to the cream cheese for a tangy treat.

INGREDIENTS
- 1 cup white whole wheat flour
- ½ cup unsweetened cocoa powder
- 1 tsp baking powder
- 1 tsp baking soda
- ¼ tsp salt
- ¼ cup Truvia
- ½ cup + 2 tbsp vanilla Greek yogurt
- ½ cup honey
- 1 egg
- 1 tsp vanilla extract
- ¼ cup + 2 tbsp unsweetened vanilla almond milk
- ½ cup mini chocolate chips, plus more for sprinkling
For The Filling:
- ¼ cup + 2 tbsp reduced-fat cream cheese, softened
- 2 tbsp Truvia

INSTRUCTIONS
- Preheat your oven to 350 degrees and spray a muffin tin with cooking spray.
- In a medium bowl, stir together the flour cocoa powder, baking powder, baking soda, salt and Truvia until well mixed.
- In a separate, large bowl whisk together ½ cup + 2 tablespoons of the Greek yogurt, honey, egg, vanilla extract, and almond milk.
- Add the dry ingredients and chocolate chips to the wet ingredients, and stir until just moistened, being careful not to over-mix.
- In a small bowl, stir together the softened cream cheese and Truvia until well mixed.
- Fill the muffin tins only ½ of the way full, making small depressions in the center of the batter. Drop ½ tablespoon of the cream cheese mixture into the center of each muffin, and lightly press down to flatten it. Cover with a spoon of remaining batter and gently spread to cover the cream cheese.
- Bake until a toothpick inserted in the center comes out clean, about 17-18 minutes. Be careful not to over-bake these as they go from perfect to dry quickly.
- Let cool in the muffin tin for 10 minutes and then transfer to a rack to finish cooling.

FAQs
You probably overfilled your muffin tin. It should only be ¾ of the way full, or else your muffins will be too big and flatten.
This recipe makes 12 REGULAR-sized muffins.
You sure can. Above I mention adding a swirl of peanut butter or Nutella, but I don’t see why you couldn’t replace the dollop of cream cheese with either one.

How To Store Chocolate Chip Muffins With Cream Cheese
Allow the muffins to cool completely then put them in an airtight container or resealable plastic bag. You can keep them at room temperature for two days or in the fridge for up to 5 days. To reheat, just microwave for 15-20 seconds or put in the oven at 350°F for 5-7 minutes.

Want more muffins?

Paleo Lemon Blueberry Poppyseed Muffins

Whole Wheat Chocolate Banana Muffins

Gluten Free Coconut Almond Muffins

Ingredients
- Ingredients:
- 1 Cup White Whole Wheat Flour 126g
- ½ Cup Unsweetened Cocoa Powder
- 1 tsp Baking powder
- 1 tsp Baking Soda
- ¼ tsp Salt
- ¼ Cup Truvia
- ½ Cup + 2 Tbsp Vanilla Greek yogurt
- ½ Cup Honey
- 1 Egg
- 1 tsp Vanilla extract
- ¼ Cup + 2 tbsp Unsweetened Vanilla almond milk
- ½ Cup Mini chocolate chips plus more for sprinkling
- For the filling:
- ¼ Cup + 2 Tbsp reduced-fat Cream Cheese softened
- 2 Tbsp Truvia
Instructions
- Preheat your oven to 350 degrees and spray a muffin tin with cooking spray.
- In a medium bowl, stir together the flour cocoa powder, baking powder, baking soda, salt and Truvia until well mixed.
- In a separate, large bowl whisk together ½ Cup + 2 Tbsp of the Greek yogurt, honey, egg, vanilla extract and almond milk.
- Add the dry ingredients and chocolate chips to the wet ingredients, and still until just moistened, being careful not to over-mix.
- In a small bowl, stir together the softened cream cheese and Truvia until well mixed.
- Fill the muffin tins only ½ of the way full, making small depressions in the center of the batter. Drop ½ Tbsp of the cream cheese mixture into the center of each muffin, and lightly press down to flatten it. Cover with a spoon of remaining batter and gently spread to cover the cream cheese. Your muffin tin should only be able ¾ of the way full, or else your muffins will be too big and flatten *
- Bake until a toothpick inserted in the center comes out clean, about 17-18 minutes. Be careful not to over-bake these as they go from perfect to dry quickly.
- Let cool in the muffin tin for 10 mins and then transfer to a rack to finish cooling.
Recipes written and produced on Food Faith Fitness are for informational purposes only.
Maryea {happy healthy mama} says
Oh, girl. These look like the Little Debbie cupcakes of my youth! I’m dying.
Taylor Kiser says
Oh my gosh, they do look like that! I promise they’re better for you 😉 Thanks Maryea!
Matea says
Cream cheese and chocolate muffins should be staples in every diet 🙂
Taylor Kiser says
AGREE! Thanks Matea!
[email protected]+The+Almond+Eater says
These are the cutest little muffins! I’m glad you finally tried Chipotle–I imagine you’ll be going back on a semi regular basis now (so addicting).
Taylor Kiser says
Yep. Ihop and Chipotle are in the SAME PARKING LOT. My life is over.
Thanks Erin!
[email protected] says
That gorgeous little ribbon of cream cheese inside is seriously enough to make me drool aaaall over my keyboard. Holey moley I am LURVING the sound of these ninja muffins. Leftovers?! I’ll take them all. 😀
Thanks for sharing my cranberry muffins, girl!
Taylor Kiser says
Haha, glad you like the ninja-ness of these little guys Sarah, thanks!
And you are SO welcome, they look awesome!
Katrina @ Warm Vanilla Sugar says
The filling in there looks lovely! Such a yummy muffin.
Taylor Kiser says
hank you friend!!
[email protected] says
YUM! Taylor these look amazing!! Love me some healthy muffins, I make them pretty much every day I feel like since it’s about all my baby eats haha! Love the cream cheese in these 🙂
Taylor Kiser says
Haha, hey whatever gets the kiddo to eat right?!
Thanks girlfriend!
Meg @ The Housewife in Training Files says
Girl, I can’t believe you just now went to Chipolte! We eat it far too much but there is so much love there! Andddd I have been dying to make muffins lately. Double chocolate + cream cheese = me sold! Pinned!
Taylor Kiser says
I know, where have I been right?!
Thanks girlfriend!
[email protected]+A+Healthy+Life+For+Me says
Thank goodness you are now eating like the rest of us… at chipotle. Love these little bites of chocolate goodness.
Taylor Kiser says
Haha! Time to assimilate right?
Thanks Amy!
Gayle @ Pumpkin 'N Spice says
I went to Chipotle for the first time last year, and I’m definitely a bit older than you, so don’t feel bad! 🙂 Isn’t it amazing? I’m so in love with their burrito bowls. These chocolate chip muffins sound incredible, Taylor! And bonus that they’re healthy too!
Taylor Kiser says
Okay, I do feel a wee bit better! And, yes, It is SO GOOD! The burrito bowl is what I had – yum!
Thanks so much Gayle!
[email protected]+Dinner-Mom says
These little muffins are just what I love! As for Chipotle…we got one about a year ago and I am hooked!
Taylor Kiser says
It’s SO GOOD right?! Thanks Marjory!