Go Back
Two pumpkin cream cheese muffins stacked next to a bottle of milk

Gluten-Free Pumpkin Cream Cheese Muffins

5 from 1 vote
Author: Emily Dixon, Sweets & Thank You
These gluten-free pumpkin cheesecake muffins combine perfectly a spiced pumpkin muffin with crisp cinnamon streusel and a surprise cream cheese filling you'll LOVE!
Prep Time: 20 minutes
Cook Time: 20 minutes
Total Time: 40 minutes
Print Pin
Servings: 12 -14 Muffins

Equipment

Ingredients

For The Cinnamon Streusel

For Pumpkin Muffin Batter

  • 1 ⅔ cup Gluten-Free Measure-For-Measure Flour* (200 grams)
  • 1 teaspoon Baking Powder
  • 1 teaspoon Baking Soda
  • 2 teaspoons Cinnamon
  • ½ teaspoon Nutmeg
  • ½ teaspoon Ground Ginger
  • ¼ teaspoon Ground Cloves
  • ½ teaspoon Kosher Salt
  • 1 cup Pumpkin Puree (Not Pumpkin Pie Filling)
  • ½ cup Oil (Like Canola Oil or Vegetable Oil)
  • cup Milk
  • ½ cup Brown Sugar (100 grams)
  • ½ cup Granulated Sugar (100 grams)
  • 2 Large Eggs (Room Temperature)
  • 1 teaspoon Vanilla Extract

For The Cream Cheese Filling

  • 8 ounces Full-Fat Cream Cheese, Like Philadelphia (Softened To Room Temperature)
  • 3 Tablespoons Granulated Sugar (38 grams)
  • 1 Large Egg Yolk (Save white for another use)
  • 1 teaspoon Vanilla Extract

Instructions

  • Preheat & Prep. To start, preheat oven temperature to 425 degrees F. Line a muffin pan with parchment paper liners and set aside.
  • Make Streusel. In a small mixing bowl, combine gluten-free flour, brown sugar, cinnamon, and melted butter. Stir with a fork until all the dry ingredients are coated in butter and clusters form.
  • Start Dry Ingredients For Muffin Batter. In a large mixing bowl, combine gluten-free flour, baking powder, baking soda, cinnamon, nutmeg, ginger, cloves, and salt. Whisk until well blended.
  • Add Wet Ingredients. Then, add pumpkin puree, oil, milk, brown sugar, sugar, eggs, and vanilla. Whisk to combine until muffin batter is smooth.
  • Make Cream Cheese Filling. In a medium bowl, combine softened cream cheese, 3 Tablespoons sugar, egg yolk, and 1 teaspoon vanilla. Beat with a hand mixer on medium speed 1-2 minutes until smooth and fluffy. (You *can* mix this by hand, just make sure the cream cheese is soft before starting!)
  • Layer Muffins. Use a medium cookie scoop to add 1 1/2 Tablespoons muffin batter into each muffin cup. Then, use a small cookie scoop to add 1 Tablespoon cream cheese filling to the center of each muffin cup. I like to slightly flatten the cream cheese out a bit so it doesn't sink later. Then, top with another scoop (1 1/2 Tablespoons) of pumpkin batter on top of the cream cheese layer. Add about a 1 Tablespoon scoop of streusel topping on top of each muffin, lightly pressing it into the batter so it doesn't fall off during baking.
  • Bake & Cool. Now, bake the muffins for 5 minutes at 425 degrees, then (leaving the muffins in the oven), reduce the oven temperature to 350 degrees and bake another 15-18 minutes, or until muffins are fully baked. Let muffins cool 2-3 minutes in the pan, then transfer to a wire rack to finish cooling before eating.
  • Serve & Store. Enjoy cooled muffins right away. Store leftover muffins in an airtight container 2-3 days in the fridge, for best results, or freeze in a freezer-safe ziplock bag for up to 2 months!

Notes

  • Gluten-Free Flour. I highly recommend King Arthur Measure-For-Measure Gluten-Free Flour for these pumpkin cream cheese muffins. If you use another gluten-free flour blend, be sure it contains xanthan gum, or the muffins won't have the right texture. Do not substitute alternative gluten-free flours, like almond flour or coconut flour, into this recipe. 
  • A Trick For Pretty Muffins. If, after removing the baked muffins from the oven, you notice that some of the streusel has migrated, use the back of a spoon to gently tuck it back into the muffin while it's hot. 

Video

Course: Breakfast, Muffins
Cuisine: American
Diet: Gluten Free
Keyword: cream cheese, fall, pumpkin