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Pumpkin Cream Cheese Muffins Recipe

Rich, moist cakey pumpkin cream cheese muffins are soft and blissfully good! This creamy pumpkin muffins make a fantastic, filling breakfast or snack.

Coffee, homemade grape juice or your favorite iced tea are excellent companions with these satisfying fall treats.

It’s time to get back into warm cozy pumpkin muffins and pumpkin breads too.

Pumpkin muffins make a delicious breakfast or snack.

Your family will love these sustaining yummy muffins.

Homemade Creamy Pumpkin Muffins
Homemade Creamy Pumpkin Muffins

We have several muffin recipes on the blog because…we like them. Here are a few to get you started.

Pumpkin and squashes fill baskets all over my house right now so I’m making these muffins for tomorrow’s breakfast. They are so delicious!

Homemade Pumpkin Cream Cheese Muffins
Rich and delicious Pumpkin muffins are a wonderful breakfast.

If you have pumpkin tucked away in your freezer or pantry for the off season pull that homemade puree out and use it for this recipe.

If you have canned pumpkin puree that is also a great choice for this muffin recipe. Do NOT use canned pumpkin pie filling.

Homemade Roasted Pumpkin Puree
Homemade Roasted Pumpkin Puree works great in these rich creamy Pumpkin Muffins.

Homemade Pumpkin Cream Cheese Muffins Recipe:

The delicious flavor combination of Pumpkin and cream cheese add filling comfort food and fall goodness into your morning meal, or mid day snack.

These muffins are easy to make but it is a three step process. Don’t let all the instructions bother you. Just do it one step at a time and before you know it, yummy pumpkin spice smells will fill your kitchen and delightful Creamy Pumpkin Muffin will fill your mouth.


  • The topping is simple but mine came out a bit wet the first time I made this recipe. To fix that I added the oil in small amounts and had better results. Use just enough oil or butter to make the crumbles.
  • Coconut oil adds REALLY great flavor into this recipe and replaces butter one to one with great results. Feel free to use butter if you would rather.
  • Let these muffins cool all the way before serving. The flavor is much better at room temperature than baking hot.
  • The muffin paper comes off easily when cooled. When hot the muffins cling to the paper.
  • These are a crumbly muffin. They tend to separate into the layers if they are not completely cooled. Eating them at room temperature is best.

Go for it!

Homemade Creamy Pumpkin Muffins
Homemade Pumpkin Muffins with a yummy cream cheese layer.

Enjoy the creative process of baking these muffins and the delicious results.

These Moist, rich, muffins with coconut oil and flax for satisfying, healthy fats and fiber will satisfy your family with nourishing energy to get through the day.

Instructions Summary:

Don’t let the long recipe scare you off. Just complete each step. It’s not hard. These muffins are worth it!

  • Make the crumb-topping first
  • Set aside the topping and make the pumpkin muffins:
  • Make the cheesecake filling
  • Assemble and bake the muffins
  • Cool to room temperature before serving
Pumpkin Cream Cheese Muffins
These Homemade Pumpkin Muffins with layers of delicious cream cheese filling freeze well.

Freeze These Pumpkin Muffins:

Creamy Pumpkin Muffins freeze well for up to 2 months. What a nice treat these make for a quick winter breakfast.

Freezing Tips:

  • Cool to room temperature
  • Carefully Place these muffins in a gallon ziplock freezer bag (Or freezer container) so they stay upright and sit flat in your freezer.
  • Remove all the air from the ziplock bag.
  • You may also vacuum pack these muffins if you have one.
  • Label and place in your freezer on top so they are not squashed by other frozen foods.

Your Printable Pumpkin Muffin Recipe:

Homemade Creamy Pumpkin Muffins
Yield: 12 muffins

Pumpkin Cream Cheese Muffins

Prep Time: 25 minutes
Cook Time: 20 minutes
Total Time: 45 minutes

Rich, moist cakey pumpkin cream cheese muffins are soft and blissfully good! This creamy pumpkin muffins make a fantastic, filling breakfast or snack.


Crumb Topping

  • 1/4 cup brown sugar
  • 1/2 cup all-purpose flour
  • 1 teaspoon ground cinnamon
  • 1/4 cup coconut oil-scant, melted

Pumpkin muffins

  • 1 3/4 Cups all-purpose flour
  • 1 tsp. baking powder
  • 1 tsp. baking soda
  • 1/4 Cup flax
  • 1/2 tsp. salt
  • 2 tsp. ground cinnamon
  • 1 tsp.pumpkin pie spice
  • 1/2 cup brown sugar
  • 2 large eggs
  • 1 cup pumpkin puree
  • 1/2 cup melted coconut oil
  • 1/3 cup milk
  • 1 tsp. vanilla extract

Cheesecake Filling

  • 6 ounces cream cheese, softened to room temperature
  • 1 egg yolk
  • 1 tsp. vanilla extract
  • 3 Tablespoons granulated sugar


  1. Preheat oven to 425F degrees.
  2. Line a 12 hole muffin tin with liners or oil. Set aside.


  1. Add the brown sugar, flour, and cinnamon to a small bowl and mix until combined.
  2. Add the melted coconut oil and mix until crumbs form.
  3. Set aside the topping until needed

Pumpkin muffins:

  1. In a large bowl, whisk together the flour, baking powder, baking soda, salt, cinnamon and pumpkin pie spice until combined.
  2. In a medium bowl, whisk the brown sugar and eggs together until combined.
  3. Whisk the pumpkin, oil, milk, and vanilla into the sugar/egg mixture.
  4. Pour the wet ingredients into the dry ingredients and stir until just combined. Set aside.

Cheesecake filling:

  1. In a medium bowl, beat the softened cream cheese with an electric handheld (or stand) mixer on medium-high speed until creamy.
  2. Add the egg yolk, vanilla extract, and sugar. Beat until combined.


  1. Layer the muffin batter onto the bottom of the muffin cup (I used a teaspoon).
  2. Alternate the pumpkin batter layers with the cream cheese mixture until cups are full.( I took a toothpick and 'encouraged' the batter a bit to close any gaps). The muffin cups will be almost full.
  3. Heavily sprinkle the topping onto the muffins. This topping is crumbly so expect some crumbles on the muffin pan.

Baking Instructions:

  1. Bake the muffins for 5 minutes at 425 F degrees.
  2. Keeping the muffins in the oven, lower the temperature down to 350F and bake for an additional 15 minutes or until a toothpick inserted in the center comes out clean.
  3. Cool for 10 minutes in the muffin tin, then transfer to a wire rack to cool until ready to eat.

Nutrition Information



Serving Size


Amount Per Serving Calories 386Total Fat 23gSaturated Fat 15gTrans Fat 0gUnsaturated Fat 5gCholesterol 61mgSodium 330mgCarbohydrates 40gFiber 3gSugar 17gProtein 6g

Did you make this recipe?

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Pumpkin Cream Cheese Muffins-Pin Image
Rich, moist cake like pumpkin cream cheese muffins are soft and blissfully good! This creamy pumpkin muffins make a fantastic, filling breakfast or snack.
Pumpkin Cream Cheese Muffins-Pin Image
Rich, moist cakey pumpkin cream cheese muffins are soft and blissfully good! This creamy pumpkin muffins make a fantastic, filling breakfast or snack.

50+ Thanksgiving Breakfast Ideas | The Worktop

Sunday 31st of October 2021

[…] Rich, moist cakey pumpkin cream cheese muffins are soft and blissfully good! Get the recipe […]


Thursday 24th of September 2020

The ingredients show flax but I don't see it in the recipe. Do you need flax? Would prefer without but a 1/4cup seems like a lot to remove from a recipe.


Thursday 24th of September 2020

If you use it put it in with the dry ingredients. I add it for a higher fiber muffin. I think you can omit it. The muffins will be lighter but they should still hold together. If you think the batter is too loose add 1/8 Cup extra flour. Thanks for pointing this out. I'll update the recipe. :)

50+ Delicious Thanksgiving Breakfast Ideas | The Worktop

Tuesday 21st of November 2017

[…] Creamy Pumpkin Muffins by Homemade Food Junkie […]


Tuesday 10th of September 2019

C an not wait to make the pumpkin muffins. I may aďd mini chocolate chips or butterscotch. Chips to the recipe.

Beth (OMG! Yummy)

Monday 29th of September 2014

Wow - so many great things all in one muffin. It's still warm here, but we are getting the afternoon breezes that sound like fall so I am getting in the mood! Welcome to CCN!


Monday 29th of September 2014

Hello Beth and thank you for stopping by We are in full fall swing here in the NW corner of Washington State. I appreciate your taking the time to come check out my site. I'll be over to see you soon! Diane

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