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You are here: Home / Recipes / Cheesecake Chocolate Chip Muffins

Cheesecake Chocolate Chip Muffins

Published: May 17, 2019 · Modified: May 17, 2019 by Lois · This post may contain affiliate links · 13 Comments

Cheesecake Chocolate Chip Muffins takes two of my favorite flavors and combines them into one delicious breakfast muffin that can also be served as dessert. Check out this easy recipe for a delicious, moist, homemade muffin...or maybe it's a cupcake? You decide! 

Cheesecake Chocolate Chip Muffins or Black Bottom Muffins from Walking on Sunshine Recipes

Cheesecake Chocolate Chip Muffins are a delicious combination of cheesecake and chocolate cake all in one little package called a muffin. Therefore, they are definitely sweet enough to serve at the end of a meal or place on a dessert buffet table if you're celebrating something special. 

Cheesecake Chocolate Chip Muffins

This recipe is very similar to a Black Bottom Cupcake or Black Bottom Muffins. However, I'm calling them cheesecake chocolate chip muffins because cheesecake and me are really good friends. It's actually one of my all-time favorite desserts. 

The chocolate cake portion of this muffin calls for Greek yogurt, but you can definitely substitute sour cream if that's what you have on hand. 

Tips for Baking Muffins

  • Spray the cupcake liners with non-stick cooking spray to make sure the muffin doesn't stick. I started doing this years ago when the paper liners were sticking to whatever I was baking. 
  • I always bake muffins or cupcakes on the center rack in my oven. 
  • If for some reason, the muffin pan is not completely filled with muffin batter, fill the empty cups in the pan with water. 
  • Always follow baking time directions, but you'll know when the muffins are done when you insert a toothpick into the center of the muffin and it comes out clean or with just a few crumbs sticking to it. If you have batter sticking to the toothpick, you need to bake them for a few extra minutes. 

How to Make Cheesecake Chocolate Chip Muffins

Make sure you print out the recipe below and save it for later!

Preheat oven to 400 degrees. Prepare two muffin pans with liners. This recipe should yield about 16 muffins depending on the size of your muffin pan and how full you fill them. 

Chocolate Muffin Ingredients

  • ½ cup unsweetened cocoa powder
  • 2 cups all purpose flour
  • 1 tsp baking soda
  • 1 tsp salt
  • 1 stick – unsalted butter
  • 1 cup granulated sugar
  • 1 egg
  • 1 cup plain Greek yogurt
  • ½ cup milk
  • ¼ cup cooled coffee
  • 1 tsp vanilla extract
  • ¾ cup mini chocolate chips

Cheesecake Filling Ingredients

  • 8 oz cream cheese – softened
  • ½ cup granulated sugar
  • 1 egg
  • ½ tsp vanilla extract
  • ¼ cup mini chocolate chips

How to Prepare the Cheesecake Filling:

  1. In a medium bowl, mix the cream cheese and sugar until creamy.
  2. Add in the egg and vanilla extract, continue mixing until well combined.
  3. Gently mix in the chocolate chips.
  4. Take a large Ziploc bag or piping bag and spoon the cheese cake filling into the bag.
  5. Chill in the fridge until needed.

How to Prepare the Chocolate Muffins:

  1. In a large bowl, combine the dry ingredients: flour, cocoa powder, baking soda and salt. Set aside.
  2. In another bowl, beat the butter and sugar until creamy.
  3. Then, add in the egg, yogurt, milk, coffee and vanilla.
  4. Mix well until everything is well combined.
  5. Slowly, add in the dry ingredients into the wet and mix until everything is well combined.
  6. Gently mix in ½ of your chocolate chips.
  7. Take a large Ziploc bag or piping bag and spoon the batter into your bag. The batter will be very thick.
  8. Cut the tips off of your bags and squeeze about a tbsp. of muffin batter into the muffin liners.
  9. Then, squeeze about 2 tbsp of cheesecake batter on top and top with more muffin batter.
  10. Finally, top with a sprinkle of chocolate chips.
  11. The liners should be about ¾ of the way full.

Let's Get Baking! 

Ingredients for Cheesecake Chocolate Chip Muffins

To begin with, prepare the cheesecake filling and then prepare the chocolate muffin batter. Yes, you'll have to clean the mixing bowl after the cheesecake filling, but that's okay. However, these muffins are worth the extra dish washing you have to do! 

Cheesecake Filling and Chocolate Muffin Filling in bowls and decorating bags

How to Fill Plastic Decorating Bags

Here's an easy tip I've shared before on how to fill the plastic decorating bags: 

  • Take a large plastic storage bag or a disposable decorating bag, and place it inside a large drinking glass or tall jar. 
  • Cuff the excess bag over the sides of the glass. 
  • Make sure the inside of the bag is smooth by pressing it to the sides of the drinking glass. 
  • Spoon the batter into the bag using a spatula being careful not to fill it all the way up or the batter will overflow once you start squeezing. 
  • Gently lift the bag out of the glass jar and squeeze it gently to work the batter down into the bottom of the bag. 
  • Twist the end of the bag and snip one corner with the kitchen scissors.

Pastry Bags filled with cheesecake filling and chocolate muffin batter ready to fill cupcake liners.

How to Fill the Muffin Pan:

  1. Cut the tips off of your bags and squeeze about a tbsp. of muffin batter into the muffin liners.
  2. Then, squeeze about 2 tbsp of cheesecake batter on top. Then top with more muffin batter.
  3. Finally, top with a sprinkle of chocolate chips. The liners should be about ¾ of the way full.

Fill bottom of cupcake liner with Chocolate Cake Batter from Walking on Sunshine Recipes

Squeeze some of the cheesecake filling on top of the chocolate muffin batter. 

Add cheesecake layer on top of chocolate muffin layer.

Next cover with another swirl of the chocolate muffin batter followed by a few extra chocolate chips. I really like using mini chocolate chips for this recipe. But if all you have are regular size chocolate chips on hand...go for it! 

Add chocolate chips to top of muffin batter.

How to Bake the Muffins:

  1. Bake at 400 for just 5 minutes, then turn the heat down to 350 degrees and continue baking for about 13-15 minutes.
  2. Cool before unwrapping, the muffins will release better when cooled.

Cheesecake Chocolate Chip Muffins in muffin tin ready for oven.

Cheesecake Chocolate Chip Muffins takes two of my favorite flavors and combines them into one delicious breakfast muffin that can also be served as dessert. All that's missing is a cup of coffee or tea!

Cheesecake Chocolate Chip Muffins stacked on white plate

More Delicious Chocolate Recipes

  • Chocolate Chunk Muffins
  • My Favorite Recipe for Chocolate Cheesecake
  • Chocolate Brownie Cake with Homemade Chocolate Ganache

Cheesecake Chocolate Chip Muffins or Black Bottom Muffins from Walking on Sunshine Recipes

Cheesecake Chocolate Chip Muffins

Yield: 16 muffins
Prep Time: 30 minutes
Cook Time: 20 minutes
Total Time: 50 minutes

Cheesecake Chocolate Chip Muffins takes two of my favorite flavors and combines them into one delicious breakfast muffin that can also be served as dessert.

Ingredients

Chocolate Muffin Ingredients

  • 2 cups all purpose flour
  • ½ cup unsweetened cocoa powder
  • 1 tsp baking soda
  • 1 tsp salt
  • 1 stick – unsalted butter
  • 1 cup granulated sugar
  • 1 egg
  • 1 cup plain Greek yogurt
  • ½ cup milk
  • ¼ cup cooled coffee
  • 1 tsp vanilla extract
  • ¾ cup mini chocolate chips

Cheesecake Filling Ingredients

  • 8 oz cream cheese – softened
  • ½ cup granulated sugar
  • 1 egg
  • ½ tsp vanilla extract
  • ¼ cup mini chocolate chips

Instructions

HOW TO PREPARE THE CHEESECAKE FILLING:

  1. In a medium bowl, mix the cream cheese and sugar until creamy.
  2. Add in the egg and vanilla extract, continue mixing until well combined.
  3. Gently mix in the chocolate chips.
  4. Take a large Ziploc bag or piping bag and spoon the cheese cake filling into the bag.
  5. Chill in the fridge until needed.

HOW TO PREPARE THE CHOCOLATE MUFFINS:

  1. In a large bowl, combine the dry ingredients: flour, cocoa powder, baking soda and salt. Set aside.
  2. In another bowl, beat the butter and sugar until creamy.
  3. Then, add in the egg, yogurt, milk, coffee and vanilla.
  4. Mix well until everything is well combined.
  5. Slowly, add in the dry ingredients into the wet and mix until everything is well combined.
  6. Gently mix in ½ of your chocolate chips.

HOW TO FILL THE MUFFIN PANS:

  1. Take a large Ziploc bag or piping bag and spoon the batter into your bag. The batter will be very thick.
  2. Cut the tips off of your bags and squeeze about a tbsp. of muffin batter into the muffin liners.
  3. Then, squeeze about 2 tbsp of cheesecake batter on top and top with more muffin batter.
  4. Finally, top with a sprinkle of chocolate chips.
  5. The liners should be about ¾ of the way full.

HOW TO BAKE THE MUFFINS:

  1. Bake at 400 for just 5 minutes, then turn the heat down to 350 degrees and continue baking for about 13-15 minutes.
  2. Cool before unwrapping, the muffins will release better when cooled.

Recommended Products

As an Amazon Associate and member of other affiliate programs, I earn from qualifying purchases.

  • Large Disposable Icing Decorating Bags Cake Piping Bags with 5 Bag Ties
    Large Disposable Icing Decorating Bags Cake Piping Bags with 5 Bag Ties
  • Muffin Liners, 150-Count
    Muffin Liners, 150-Count
  • AmazonBasics Nonstick Carbon Steel Muffin Pan - 2-Pack
    AmazonBasics Nonstick Carbon Steel Muffin Pan - 2-Pack
Nutrition Information:
Yield: 16 Serving Size: 1
Amount Per Serving: Calories: 315Total Fat: 15gSaturated Fat: 9gTrans Fat: 0gUnsaturated Fat: 5gCholesterol: 54mgSodium: 289mgCarbohydrates: 41gFiber: 2gSugar: 26gProtein: 6g

The nutrition information is calculated automatically. I cannot guarantee its accuracy. If this data is important to you, please verify with your trusted nutrition calculator.

© Lois
Cuisine: American / Category: Breakfast

Cheesecake Chocolate Chip Muffins unwrapped and in muffin pan.

Closeup Cheesecake Chocolate Chip Muffins

 

 

About Lois

Originally from Queens, NY, Lois now calls northeastern PA home. You can find her blogging over at Walking on Sunshine where she shares a little of her life, but more importantly what’s for dinner at her house tonight.

Reader Interactions

Comments

  1. Natasha Mairs says

    January 30, 2020 at 12:21 pm

    These look so tasty! And glad that you put loads of chocolate chips on them

    Reply
  2. Allyson says

    January 29, 2020 at 2:11 pm

    They look delicious so I can only imagine that they will taste decadent ~ Pinned! I also pinned a couple of your posts from holiday/seasons section. I'm visiting from Tuesday Turn About. If you are interested, I shared #12 and #14. It's nice discovering your blog!

    Reply
    • Lois says

      January 30, 2020 at 9:44 am

      Thank you!

      Reply
  3. Joanne says

    January 27, 2020 at 2:53 pm

    Those look delicious and who doesn't like cheesecake and chocolate? Pinned.

    Reply
  4. Marisa F. Stewart says

    May 31, 2019 at 12:02 pm

    Wish I had one right now with my coffee. I love the combination of cheesecake and chocolate - a double treat in one. It's really a clever idea using the decorator bags to get the combination of flavors just so. These cupcakes would be a huge hit with my grandsons.

    Reply
  5. Arlene Mobley says

    May 31, 2019 at 10:31 am

    Looks like the perfect muffin to me! I can see myself eating the entire batch.

    Reply
  6. Jolina says

    May 30, 2019 at 4:14 pm

    Yummmm!! This looks so rich and decadent and right up my alley! Also love the tip about filling the empty muffin cups in the pan with water. What does it do?

    Reply
  7. Denise says

    May 29, 2019 at 11:41 am

    They look incredibly moist and satisfying. I could eat them any time of the day, and I could go for one right now!

    Reply
  8. Veena Azmanov says

    May 29, 2019 at 9:19 am

    Delicious, cute, moist and yummy and surely my next party option.

    Reply
  9. Kippi says

    May 28, 2019 at 7:28 pm

    Yum, I just pinned this fabulous recipe. I cannot wait to try it:)
    Have a great week,
    Kippi #kippiathome

    Reply
  10. Gloria says

    May 28, 2019 at 9:49 am

    These are perfect for my morning coffee or afternoon latte. A chocolate lovers dream muffin. If you love cheesecake, these are for you!! That means ME!!

    Reply
  11. gail says

    May 25, 2019 at 9:07 am

    Breakfast AND dessert! That's a winning combination for sure.

    I'm choosing your recipe for my feature next week. Thanks for sharing at Talk of the Town!

    pinning!

    gail

    Reply
    • Lois says

      May 25, 2019 at 2:23 pm

      Thank you for the feature! I love spending time with your parties every week.

      Reply

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