Pumpkin Cheesecake Cupcakes Recipe – Perfect Fall Dessert

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Pumpkin Cheesecake Cupcakes

Pumpkin cheesecake cupcakes combine the best of autumn flavors with creamy cheesecake indulgence in perfectly portioned treats. These delightful desserts feature a spiced pumpkin cake base swirled with rich cream cheese filling, creating an irresistible combination that’s perfect for fall gatherings, holiday celebrations, or whenever you crave something special.

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Why You'll Love This Recipe

  • Perfect portion control with individual servings that prevent overindulging while satisfying your dessert cravings
  • Rich in vitamin A from pumpkin puree, supporting eye health and immune system function
  • Budget-friendly recipe costing approximately $8-12 total, serving multiple people affordably
  • Ideal for fall celebrations, Thanksgiving gatherings, and cozy family dinners
  • Make-ahead friendly design allows you to prepare them a day before your event

Why These Pumpkin Cheesecake Cupcakes Work

The magic lies in the layering technique that creates distinct flavors in every bite. The pumpkin base provides natural sweetness and moisture, while warm spices like cinnamon and nutmeg enhance the autumn essence.

The cream cheese layer adds richness without overwhelming the delicate pumpkin flavor. This balance creates a dessert that’s indulgent yet not overly heavy, making it perfect for ending a hearty meal.

The cupcake format ensures even baking and consistent results. Unlike large cheesecakes that can crack or bake unevenly, these individual portions cook perfectly every time, giving you professional-looking results at home.

pumpkin cheesecake cupcakes food photograph 1

What You’ll Need for Perfect Pumpkin Cheesecake Cupcakes

Ingredients

IngredientQuantity (Approx)Purpose / Notes
All-purpose flour1 cupProvides structure and texture to the cupcake base
Baking powder1 teaspoonCreates lift and fluffy texture
Ground cinnamon1 teaspoonAdds warm spice flavor
Ground nutmeg1/2 teaspoonEnhances autumn spice profile
Salt1/4 teaspoonBalances sweetness and enhances flavors
Canned pumpkin puree1 cupMain flavor base and natural moisture
Granulated sugar3/4 cupSweetens pumpkin batter
Large eggs2Binds ingredients and adds richness
Vanilla extract1 teaspoonEnhances overall flavor profile
Cream cheese, softened8 ozCreates creamy cheesecake layer
Sugar (for filling)1/4 cupSweetens cream cheese layer
Large egg (for filling)1Binds cheesecake filling
Whipped creamFor toppingFinal garnish and added creaminess

Tools

ToolPurpose
Muffin tinShapes cupcakes and ensures even baking
Cupcake linersPrevents sticking and easy removal
Mixing bowlsSeparate preparation of different batters
Electric mixerSmoothly blends cream cheese filling
Measuring cupsAccurate ingredient proportions
ToothpickTests doneness

How to Make Pumpkin Cheesecake Cupcakes

StepInstructions
1. PreparationPreheat oven to 350°F (175°C) and line muffin tin with cupcake liners
2. Dry ingredientsWhisk together flour, baking powder, cinnamon, nutmeg, and salt in a bowl
3. Pumpkin mixtureMix pumpkin puree, sugar, eggs, and vanilla until completely smooth
4. Combine battersGradually fold dry ingredients into pumpkin mixture until just combined
5. Cheesecake layerBeat cream cheese with additional sugar and egg until smooth and creamy
6. AssemblyFill liners halfway with pumpkin batter, add cheesecake dollop, cover with more pumpkin batter
7. BakingBake for 20-25 minutes until toothpick comes out clean
8. FinishingCool completely before adding whipped cream topping

Chef's Helpful Tips

  • Ensure cream cheese is fully softened at room temperature for smooth mixing without lumps
  • Don’t overmix the pumpkin batter to prevent tough, dense cupcakes
  • Use an ice cream scoop for evenly portioned batter distribution
  • Test doneness with a toothpick inserted into the pumpkin portion, not the cheesecake center
  • Cool completely before frosting to prevent melting and sliding

Serving and Storage Tips for Pumpkin Cheesecake Cupcakes

Serving Tips

Serve these cupcakes chilled for the best texture and flavor contrast. The cool, creamy cheesecake layer pairs beautifully with the spiced pumpkin base when properly chilled.

Garnish with a dollop of whipped cream and a light sprinkle of cinnamon for an elegant presentation. For special occasions, consider adding a small piece of candied ginger or a cinnamon stick as decoration.

These treats work wonderfully for family gatherings alongside savory dishes. They’re also perfect for potluck dinners, office parties, and holiday celebrations.

Store leftover cupcakes in the refrigerator for up to 5 days in an airtight container. For longer storage, freeze unfrosted cupcakes for up to 3 months, thawing completely before serving.

pumpkin cheesecake cupcakes food photograph 2

Mistakes to Avoid While Making Pumpkin Cheesecake Cupcakes

Overmixing the batter creates tough, dense cupcakes instead of tender, fluffy ones. Mix ingredients just until combined, leaving some small lumps rather than achieving perfect smoothness.

Using cold cream cheese results in lumpy, uneven cheesecake filling. Always bring cream cheese to room temperature, or soften quickly in the microwave using 10-second intervals.

Overbaking leads to dry, cracked cupcakes. Start checking for doneness at 20 minutes, as oven temperatures vary. The tops should spring back lightly when touched.

Skipping the cooling process causes frosting to melt and slide off. Allow cupcakes to cool completely at room temperature, then refrigerate before adding any toppings.

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You Must Know

  • Always use pure pumpkin puree, not pumpkin pie filling, which contains added spices and sugar
  • Room temperature ingredients blend more easily and create smoother batters
  • Cupcake liners prevent sticking and make removal much easier
  • These cupcakes taste better the next day as flavors meld and develop

Suggestions for Pumpkin Cheesecake Cupcakes

Transform these cupcakes into mini cheesecakes by using a mini cheesecake approach with graham cracker crusts in the bottom of each liner.

Create variety by swirling maple syrup into the cream cheese layer for enhanced fall flavors. You can also add chopped pecans or walnuts to the pumpkin batter for extra texture and nutty richness.

For a lighter version, substitute Greek yogurt for half the cream cheese, reducing calories while maintaining creaminess. This modification works especially well if you’re serving these alongside heavier dishes like rich pasta dishes.

Experiment with different spice combinations by adding ground ginger, allspice, or cardamom. These warm spices complement the pumpkin beautifully and create unique flavor profiles for different occasions.

pumpkin cheesecake cupcakes food photograph 3

FAQs:


Can I make pumpkin cheesecake cupcakes ahead of time?

Yes, these cupcakes actually improve in flavor when made a day ahead. Store them covered in the refrigerator and add whipped cream topping just before serving.


What's the best way to get smooth cream cheese filling?

Ensure cream cheese is completely softened to room temperature before mixing. Beat it alone first until smooth, then gradually add other ingredients to prevent lumps.


Can I freeze pumpkin cheesecake cupcakes?

Yes, freeze unfrosted cupcakes in airtight containers for up to 3 months. Thaw completely in the refrigerator before adding toppings and serving.


Why did my cupcakes crack on top?

Cracking usually occurs from overbaking or too high oven temperature. Reduce temperature by 25°F and check doneness earlier, or place a pan of water on the bottom oven rack for moisture.


Can I substitute fresh pumpkin for canned puree?

Yes, but ensure fresh pumpkin is properly roasted and pureed to remove excess moisture. Canned puree provides more consistent results and convenience.


Conclusion

These pumpkin cheesecake cupcakes deliver the perfect balance of autumn flavors and creamy indulgence in convenient individual portions. With simple ingredients and straightforward techniques, you can create bakery-quality desserts that impress family and friends.

The combination of nutritious pumpkin, protein-rich cream cheese, and warm spices makes these treats a more wholesome dessert option. Whether you’re planning a holiday gathering or simply craving fall flavors, this tried-and-true recipe delivers consistent, delicious results every time.

Remember to take your time with each step, especially when preparing the cream cheese layer. The extra attention to detail pays off with perfectly textured, beautifully layered cupcakes that capture the essence of fall in every bite.

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Pumpkin Cheesecake Cupcakes


  • Author: Jennie Graham
  • Total Time: 45 minutes
  • Yield: 8-12 total, serving 1x

Description

Delicious pumpkin cheesecake cupcakes with a creamy cheesecake layer nestled inside spiced pumpkin cupcakes, perfect for fall celebrations.


Ingredients

Scale
  • 1 cup all-purpose flour
  • 1 teaspoon baking powder
  • 1 teaspoon ground cinnamon
  • 1/2 teaspoon ground nutmeg
  • 1/4 teaspoon salt
  • 1 cup canned pumpkin puree
  • 3/4 cup granulated sugar
  • 2 large eggs
  • 1 teaspoon vanilla extract
  • 8 oz cream cheese, softened
  • 1/4 cup sugar (for filling)
  • 1 large egg (for filling)
  • Whipped cream for topping

Instructions

  • Preparation: Preheat oven to 350°F (175°C) and line muffin tin with cupcake liners
  • Dry ingredients: Whisk together flour, baking powder, cinnamon, nutmeg, and salt in a bowl
  • Pumpkin mixture: Mix pumpkin puree, sugar, eggs, and vanilla until completely smooth
  • Combine batters: Gradually fold dry ingredients into pumpkin mixture until just combined
  • Cheesecake layer: Beat cream cheese with additional sugar and egg until smooth and creamy
  • Assembly: Fill liners halfway with pumpkin batter, add cheesecake dollop, cover with more pumpkin batter
  • Baking: Bake for 20-25 minutes until toothpick comes out clean
  • Finishing: Cool completely before adding whipped cream topping

Notes

  • Ensure cream cheese is fully softened at room temperature for smooth mixing without lumps
  • Don’t overmix the pumpkin batter to prevent tough, dense cupcakes
  • Test doneness with a toothpick inserted into the pumpkin portion, not the cheesecake center
  • Cool completely before frosting to prevent melting and sliding
  • Prep Time: 20 minutes
  • Cook Time: 25 minutes
  • Category: Dessert
  • Method: Baking
  • Cuisine: American

Nutrition

  • Serving Size: 1 cupcake
  • Calories: 285 calories
  • Sugar: 22g
  • Sodium: 195mg
  • Fat: 11g
  • Saturated Fat: 6g
  • Unsaturated Fat: 5g
  • Trans Fat: 0g
  • Carbohydrates: 42g
  • Fiber: 2g
  • Protein: 6g
  • Cholesterol: 85mg

Keywords: pumpkin cheesecake cupcakes, fall desserts, pumpkin recipes, cheesecake cupcakes, autumn treats, holiday baking

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