Pumpkin Cream Cheese Swirl Muffins

Section: Rise and Shine with Delicious Breakfast Recipes

These bakery-style pumpkin cream cheese swirl muffins combine warm fall spices with rich, tangy cream cheese for an irresistible breakfast treat. The tender pumpkin base gets topped with a smooth cream cheese mixture that creates beautiful swirls when baked. Made with real pumpkin puree and a blend of warming spices, these muffins deliver the cozy flavors of autumn in every bite. They're easier to make than you'd think and taste even better than the coffee shop versions you love.

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Published By Ioana
Updated on Thu, 11 Sep 2025 16:06:20 GMT
A plate of pumpkin cream cheese swirl muffins. Bookmark
A plate of pumpkin cream cheese swirl muffins. | ioanacooks.com

Pumpkin cream cheese swirl muffins are the ultimate cozy fall treat. The warmth of pumpkin spice and the rich swirl of tangy cream cheese come together for a bakery style muffin you can enjoy at home. These are inspired by the famous coffee shop muffins, but I think they taste even better fresh from the oven with your kitchen filled with the scent of pumpkin spice.

I first baked these on a chilly October morning, and my kids ran to the kitchen just from the smell. Now they ask for them every fall weekend, and they rarely last more than a day.

Ingredients

  • Flour: All purpose flour gives structure to the muffins for a tender crumb
  • Pumpkin spice: A ready made blend or homemade mix adds that cozy fall flavor
  • Baking soda: Essential for rise and fluffiness
  • Salt: Balances sweetness and enhances spice flavors
  • Pumpkin puree: A full can of pure pumpkin brings moistness and depth not to be confused with pie filling
  • Sugar: Both granulated and brown sugar create sweetness with caramel notes
  • Eggs: Bind the batter and add richness
  • Canola oil: Keeps muffins moist without heaviness
  • Vanilla extract: A touch of real vanilla enhances both batter and filling
  • Cream cheese: Softened cream cheese swirled in for tangy contrast
  • Egg yolk: Helps bind the cream cheese filling smoothly
  • Extra sugar and vanilla: Brings sweetness and balance to the swirl

Step by Step Instructions

Sift and Mix the Dry Ingredients:
Whisk flour pumpkin spice baking soda and salt in a large bowl until even with no clumps this ensures spices are well distributed
Blend the Pumpkin Base:
Beat pumpkin granulated sugar and brown sugar in a stand mixer until smooth and creamy this creates the sweet pumpkin foundation
Add the Wet Ingredients:
Mix in the eggs oil and vanilla extract beating until fully incorporated and silky
Combine Wet and Dry:
Slowly add the flour mixture in batches mixing gently each time to avoid overworking the batter this keeps the muffins tender
Fill the Muffin Pan:
Spoon batter into lined muffin cups filling three quarters full for perfect domes this recipe makes about 18 muffins
Prepare the Cream Cheese Swirl:
Beat softened cream cheese until smooth then add sugar egg yolk and vanilla whisk until creamy and spreadable
Swirl the Topping:
Place a tablespoon of cream cheese mixture on each muffin and gently swirl with a butter knife to create a marbled look
Bake to Perfection:
Bake at 375 degrees for 18 to 20 minutes until centers are set and edges are golden the kitchen will smell incredible
Cool and Serve:
Let muffins cool slightly before removing from pan then serve warm or at room temperature with coffee or tea
A tray of pumpkin cream cheese swirl muffins. Bookmark
A tray of pumpkin cream cheese swirl muffins. | ioanacooks.com

My favorite part is the cream cheese swirl. It reminds me of baking with my grandmother who always said cream cheese makes everything taste more indulgent. Whenever I bake these muffins, I think of those cozy mornings in her kitchen.

Storage Tips

Keep muffins in an airtight container in the refrigerator for up to five days since the cream cheese filling needs to be chilled. For longer storage freeze fully cooled muffins in a freezer safe bag for up to three months.

Ingredient Substitutions

Swap canola oil with melted butter for a richer flavor. Use homemade pumpkin spice if you prefer controlling the spice levels. For a lighter filling try neufchâtel cheese instead of cream cheese.

Serving Suggestions

These muffins shine at breakfast with coffee or tea but they are also perfect on a fall dessert table. Warm them slightly in the oven before serving for that fresh baked taste.

A cupcake with a swirl of cream cheese and pumpkin. Bookmark
A cupcake with a swirl of cream cheese and pumpkin. | ioanacooks.com

Cultural Context

Pumpkin spiced baked goods have deep roots in American fall traditions. While Starbucks popularized the pumpkin cream cheese muffin in cafes, home bakers have embraced it as a seasonal staple for family gatherings and cozy weekends.

Frequently Asked Questions About Recipes

→ Can I use pumpkin pie filling instead of pumpkin puree?

No, you should only use plain pumpkin puree. Pumpkin pie filling contains added sugars and spices that will make the muffins too sweet and throw off the flavor balance.

→ How do I know when the cream cheese is soft enough?

The cream cheese should be at room temperature and easily give when pressed with your finger. If it's too cold, it won't mix smoothly and will create lumps in your filling.

→ Why do I need to store these in the refrigerator?

Because of the cream cheese swirl, these muffins need refrigeration to prevent spoilage. The dairy content makes them unsafe to store at room temperature for extended periods.

→ Can I make mini muffins instead?

Yes, you can use a mini muffin pan. Reduce the baking time to 12-15 minutes and check for doneness with a toothpick. You'll get about 36 mini muffins from this batch.

→ How can I tell when the muffins are done baking?

The centers should be set and not jiggly when gently shaken, and a toothpick inserted into the pumpkin part should come out with just a few moist crumbs attached.

→ Can I double this batch?

Absolutely! This doubles well. You'll need two standard 12-cup muffin pans or bake in batches. The baking time remains the same.

Pumpkin Cream Cheese Swirl Muffins

Warm spiced pumpkin muffins with rich cream cheese swirl make the perfect fall breakfast treat.

Time Needed to Prep
20 minutes
Cooking Duration
20 minutes
Overall Time
40 minutes
Published By: Ioana

Category of Recipe: Breakfast

Preparation Difficulty: Medium Difficulty

Type of Cuisine: American

Number of Portions: 18 How Many It Serves (18 muffins)

Dietary Preferences: Made for Vegetarians

Ingredients You'll Need

→ Muffin Batter

Ingredient 01 1 3/4 cups all-purpose flour
Ingredient 02 1 tablespoon pumpkin pie spice
Ingredient 03 1 teaspoon baking soda
Ingredient 04 1/2 teaspoon salt
Ingredient 05 1 15-ounce can pumpkin puree
Ingredient 06 1 cup granulated sugar
Ingredient 07 1/2 cup packed light brown sugar
Ingredient 08 2 large eggs
Ingredient 09 1/2 cup canola oil
Ingredient 10 1 tablespoon vanilla extract

→ Cream Cheese Swirl

Ingredient 11 8 ounces cream cheese, softened to room temperature
Ingredient 12 1/4 cup granulated sugar
Ingredient 13 1 large egg yolk
Ingredient 14 2 teaspoons vanilla extract

Steps to Follow

Step 01

Preheat oven to 375°F (190°C). Line 18 muffin cups with paper liners or grease with cooking spray.

Step 02

In a large mixing bowl, whisk together flour, pumpkin pie spice, baking soda, and salt until evenly combined.

Step 03

In the bowl of a stand mixer fitted with paddle attachment, beat pumpkin puree, 1 cup granulated sugar, and brown sugar until well combined.

Step 04

Beat in eggs, canola oil, and 1 tablespoon vanilla extract until mixture is smooth and fully incorporated.

Step 05

Add flour mixture in batches to pumpkin mixture, beating on low speed after each addition until just combined and no streaks of flour remain.

Step 06

Using a muffin scoop or large spoon, divide batter evenly among prepared muffin cups, filling each about 3/4 full.

Step 07

In clean mixer bowl, beat softened cream cheese until smooth and fluffy. Add remaining 1/4 cup sugar, egg yolk, and 2 teaspoons vanilla extract, beating until completely smooth.

Step 08

Spoon 1 tablespoon of cream cheese mixture on top of each muffin. Using a butter knife, gently swirl cream cheese into batter to create marbled effect.

Step 09

Bake for 18-20 minutes, or until centers are set and tops are lightly golden. Test doneness by gently shaking pan - centers should not jiggle.

Step 10

Remove from oven and let cool in pans for 5 minutes before transferring to wire rack. Serve warm or at room temperature.

Extra Tips

  1. Ensure cream cheese is fully softened to room temperature for smooth mixing and swirl distribution
  2. Use plain pumpkin puree, not pumpkin pie filling, to control spice levels and sweetness
  3. A muffin scoop ensures even batter distribution and uniform muffin size
  4. Store in refrigerator due to cream cheese content - safe for up to 5 days
  5. Can be frozen for up to 3 months when wrapped individually in plastic wrap

Tools You'll Need

  • Stand mixer with paddle attachment
  • 18-cup muffin pans or two 12-cup pans
  • Large mixing bowls
  • Wire whisk
  • Muffin scoop or large spoon
  • Butter knife for swirling
  • Paper muffin liners

Allergen Information

Carefully check food labels for allergens and consult an expert if you're uncertain.
  • Contains gluten (wheat flour)
  • Contains dairy (cream cheese)
  • Contains eggs