If you have never experienced the magic of a Black Bottom Cupcake, you are in for a serious treat. These vintage-inspired delights are the perfect hybrid between a moist chocolate snack cake and a rich, creamy cheesecake. Unlike traditional cupcakes that require a mountain of buttercream, these beauties come out of the oven with their own built-in “frosting.” The dark cocoa base provides a deep, earthy contrast to the tangy, sweetened cream cheese center, creating a flavor profile that is sophisticated yet deeply nostalgic. They are portable, effortless to serve, and always the first thing to disappear at a potluck or bake sale.
Recipe Information
- Prep Time: 20 minutes
- Cook Time: 25 minutes
- Total Time: 45 minutes
- Servings: 18 cupcakes
- Difficulty: Medium
Nutrition values
- Calories: 285 kcal
- Protein: 4g
- Carbs: 34g
Why Make This Black Bottom Cupcakes with Cream Cheese Filling
This recipe is a baker’s favorite because it eliminates the most stressful part of cupcake making: the decorating. By baking the cream cheese filling directly into the chocolate batter, you get a beautiful white-on-black contrast that looks professional without any piping bags. The texture is incredible—the cake remains springy and light while the center stays dense and fudgy. Plus, the chocolate chips hidden inside the cream cheese add a delightful crunch and extra burst of sweetness in every bite.
Ingredients
For the Cream Cheese Filling:
- 8 oz cream cheese, softened to room temperature
- 1 large egg, room temperature
- 1/3 cup granulated sugar
- 1/8 tsp salt
- 1 cup semi-sweet mini chocolate chips
For the Chocolate Cake Base:
- 1 1/2 cups all-purpose flour
- 1 cup granulated sugar
- 1/4 cup unsweetened cocoa powder
- 1 tsp baking soda
- 1/2 tsp salt
- 1 cup water
- 1/3 cup vegetable oil
- 1 tsp white distilled vinegar
- 1 tsp pure vanilla extract
Directions
Step 1: Preparation
Preheat your oven to 350°F (175°C). Line two standard muffin tins with paper liners to yield 18 cupcakes. Ensure your cream cheese and egg are at room temperature to prevent lumps in your filling.
Step 2: Mix the Cream Cheese Filling
In a medium mixing bowl, beat the softened cream cheese, egg, 1/3 cup sugar, and 1/8 tsp salt until the mixture is smooth and creamy. Fold in the mini chocolate chips with a spatula. Set this mixture aside.
Step 3: Combine the Dry Cake Ingredients
In a large mixing bowl, sift together the flour, 1 cup sugar, cocoa powder, baking soda, and 1/2 tsp salt. Whisking these dry ingredients ensures there are no large clumps of cocoa or soda in your batter.
Step 4: Mix the Wet Cake Ingredients
Make a well in the center of the dry ingredients. Pour in the water, vegetable oil, vinegar, and vanilla extract. Whisk the mixture until just combined and smooth. Do not overmix, or the cupcakes will become tough.
Step 5: Assemble and Bake
Fill each cupcake liner about 1/2 to 2/3 full with the chocolate batter. Place one rounded tablespoon of the cream cheese mixture directly into the center of the chocolate batter. Bake for 22 to 25 minutes, or until the chocolate cake springs back when touched and the cream cheese center is set. Allow them to cool completely in the tin before serving.
Expert Tips for Perfect Black Bottom Cupcakes with Cream Cheese Filling
- Use Room Temp Cream Cheese: If the cream cheese is cold, the filling will be lumpy. Leave it on the counter for at least an hour before starting.
- Mini Chips are Key: Mini chocolate chips distribute better in the filling and won’t sink to the bottom of the cream cheese dollop like larger chips might.
- The Vinegar Trick: Don’t skip the white vinegar! It reacts with the baking soda to give the cake its lift and tender crumb. You won’t taste it at all once baked.
- Do Not Overfill: Only fill the liners about halfway with chocolate batter. The cream cheese adds significant volume, and you don’t want them to overflow.
Delicious Variations
- Peanut Butter Swirl: Substitute the chocolate chips in the filling with peanut butter chips for a “buckeye” inspired flavor.
- Mint Chocolate: Add 1/2 teaspoon of peppermint extract to the cream cheese filling for a refreshing holiday twist.
- Pumpkin Spice: Add a teaspoon of pumpkin pie spice to the chocolate batter for a cozy autumnal version of this treat.
- Dark Chocolate: Use Dutch-processed cocoa powder for an even darker, more intense chocolate base.
Frequently Asked Questions
Do I need to refrigerate these cupcakes?
Yes. Because the filling contains cream cheese and eggs, you should store these in an airtight container in the refrigerator. They taste wonderful chilled or at room temperature.

Can I freeze Black Bottom Cupcakes?
Absolutely. These cupcakes freeze remarkably well. Wrap them individually in plastic wrap and place them in a freezer bag for up to 3 months. Thaw in the fridge overnight.
Why did my cream cheese centers sink?
If the centers sink too deeply, your chocolate batter might be too thin or you may have used too much filling. Make sure to measure your flour accurately using the spoon-and-level method.
Can I use a different oil?
Yes, any neutral-tasting oil like canola or melted coconut oil will work perfectly in this recipe.
Can I make these into mini cupcakes?
Yes, you can! Use a mini muffin tin and reduce the baking time to approximately 12-15 minutes. Use a teaspoon for the batter and a half-teaspoon for the filling.
Conclusion
Black Bottom Cupcakes with Cream Cheese Filling are a timeless classic for a reason. They offer the perfect balance of textures and flavors, satisfying both the chocolate lover and the cheesecake enthusiast. Whether you are baking for a school event or simply want a sweet treat to keep in the fridge for the week, this recipe is a reliable winner. Give them a try, and you might find they become a permanent staple in your baking rotation!

Black Bottom Cupcakes with Cream Cheese Filling
- Total Time: 45 minutes
- Diet: Vegetarian
Ingredients
- 8 oz cream cheese, softened to room temperature
- 1 large egg, room temperature
- 1/3 cup granulated sugar
- 1/8 tsp salt
- 1 cup semi-sweet mini chocolate chips
- 1 1/2 cups all-purpose flour
- 1 cup granulated sugar
- 1/4 cup unsweetened cocoa powder
- 1 tsp baking soda
- 1/2 tsp salt
- 1 cup water
- 1/3 cup vegetable oil
- 1 tsp white distilled vinegar
- 1 tsp pure vanilla extract
Instructions
- Preheat your oven to 350°F (175°C). Line two standard muffin tins with paper liners to yield 18 cupcakes. Ensure your cream cheese and egg are at room temperature to prevent lumps in your filling.
- In a medium mixing bowl, beat the softened cream cheese, egg, 1/3 cup sugar, and 1/8 tsp salt until the mixture is smooth and creamy. Fold in the mini chocolate chips with a spatula. Set this mixture aside.
- In a large mixing bowl, sift together the flour, 1 cup sugar, cocoa powder, baking soda, and 1/2 tsp salt. Whisking these dry ingredients ensures there are no large clumps of cocoa or soda in your batter.
- Make a well in the center of the dry ingredients. Pour in the water, vegetable oil, vinegar, and vanilla extract. Whisk the mixture until just combined and smooth. Do not overmix, or the cupcakes will become tough.
- Fill each cupcake liner about 1/2 to 2/3 full with the chocolate batter. Place one rounded tablespoon of the cream cheese mixture directly into the center of the chocolate batter. Bake for 22 to 25 minutes, or until the chocolate cake springs back when touched and the cream cheese center is set. Allow them to cool completely in the tin before serving.
- Cook Time: 45 minutes





