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Gluten Free Pumpkin Cream Cheese Muffins
Gluten free pumpkin cream cheese muffins are fluffy fall-inspired treats made with gluten-free all-purpose flour, warm spices, and a luscious cream cheese filling. Ready in just 35 minutes, they make 12 moist muffins with a delightful swirl of creamy goodness. Perfect for breakfast, a snack, or a cozy dessert.
One bite of these spiced muffins brings me back to childhood mornings in my mom’s kitchen, where pumpkin treats always signaled the arrival of fall. These muffins are my way of bottling that autumn magic into a single, gluten-free bite.
Table of Contents
- What makes this recipe special?
- What ingredients do you need for Gluten Free Pumpkin Cream Cheese Muffins?
- How do you make Gluten Free Pumpkin Cream Cheese Muffins step by step?
- Frequently Asked Questions About Gluten Free Pumpkin Cream Cheese Muffins
- Expert tips and pro shortcuts
- Easy ingredient swaps
- Serving ideas and what to pair with this dish
What makes this recipe special?
Gluten Free Pumpkin Cream Cheese Muffins are a delightful combination of warm spices, moist texture, and a surprise cream cheese filling. They’re a quick yet impressive treat for fall baking enthusiasts.
- Easy to prepare: With only 15 minutes of prep time, these muffins come together effortlessly.
- Perfect for any occasion: Whether it’s breakfast, a snack, or dessert, these muffins fit the bill every time.
- A balance of flavor: The spices and pumpkin puree create a cozy base, while the cream cheese filling adds a creamy tang.
- Gluten-free friendly: No one will guess these soft, tender muffins are gluten-free — they taste that good!
What ingredients do you need for Gluten Free Pumpkin Cream Cheese Muffins?
To make these muffins, you’ll need gluten-free staples, warm spices, and a few key ingredients for the perfectly creamy filling.
- 1 cup gluten-free all-purpose flour
- 1 teaspoon baking powder
- 1 teaspoon baking soda
- 1/2 teaspoon salt
- 1 teaspoon ground cinnamon
- 1/2 teaspoon ground nutmeg
- 1/4 teaspoon ground ginger
- 1/4 teaspoon ground cloves
- 1/2 cup granulated sugar
- 1/2 cup brown sugar, packed
- 1 cup canned pumpkin puree
- 2 large eggs
- 1/2 cup vegetable oil
- 1 teaspoon vanilla extract
- 4 ounces cream cheese, softened
- 1/4 cup powdered sugar
- 1/2 teaspoon vanilla extract (for cream cheese filling)
The pumpkin puree ensures the muffins stay moist, while the cream cheese creates a luscious swirl that feels like a hidden treasure in every bite.
How do you make Gluten Free Pumpkin Cream Cheese Muffins step by step?
This recipe is straightforward, combining wet and dry ingredients before adding a sweet cream cheese swirl to create the perfect fall treat. Follow these simple steps for flawless muffins.
Step 1 — Preheat the oven
Preheat the oven to 350°F (175°C) and line a muffin tin with paper liners.
You might also enjoy our swirled pumpkin cream cheese muffins.
Step 2 — Mix the dry ingredients
In a large bowl, whisk together the gluten-free flour, baking powder, baking soda, salt, cinnamon, nutmeg, ginger, and cloves.
Step 3 — Combine the wet ingredients
In another bowl, combine the granulated sugar, brown sugar, pumpkin puree, eggs, vegetable oil, and vanilla extract. Mix until smooth.
Step 4 — Combine the mixtures
Gradually add the dry ingredients to the wet ingredients, stirring until just combined. Don’t overmix!
Step 5 — Prepare the cream cheese filling
In a small bowl, mix the softened cream cheese, powdered sugar, and vanilla extract until smooth and creamy.
For more ideas, check out our pumpkin cream cheese swirl muffins.
Step 6 — Assemble the muffins
Spoon 1 tablespoon of muffin batter into each muffin cup, top with 1 teaspoon of cream cheese mixture, and cover with another tablespoon of batter. Swirl using a toothpick for a marbled effect.
Step 7 — Bake and cool
Bake for 18-20 minutes or until a toothpick inserted into the center comes out clean. Let the muffins cool in the pan for 5 minutes before transferring them to a wire rack to cool completely.
Frequently Asked Questions About Gluten Free Pumpkin Cream Cheese Muffins
How do I store these muffins?
Store the muffins in an airtight container at room temperature for up to 2 days or refrigerate for up to a week.
Can I freeze these muffins?
Yes, freeze them for up to 3 months. Thaw at room temperature or microwave briefly before serving.
Looking for something similar? Try our pumpkin cream cheese muffins.
What makes these muffins gluten-free?
Using gluten-free all-purpose flour keeps them free of gluten while maintaining a fluffy texture.
Can I make these dairy-free?
Swap the cream cheese for a dairy-free alternative and use a plant-based powdered sugar for the filling.
What if I don’t have canned pumpkin puree?
You can substitute homemade pumpkin puree as long as it has a similar thickness and consistency.
Expert tips and pro shortcuts
- Use room-temperature ingredients: This ensures a smoother batter and more even mixing.
- Don’t overmix the batter: Overmixing can make the muffins dense instead of fluffy.
- Perfect the swirl: Use the tip of a knife or a toothpick to gently swirl the cream cheese for a lovely marbled effect.
- Check for doneness: Always insert a toothpick into the center of a muffin. It should come out clean or with a few moist crumbs.
Easy ingredient swaps
If you’re missing an ingredient, try these simple swaps to make this recipe work for you.
- No vegetable oil? Use melted coconut oil or light olive oil for a comparable texture and flavor.
- No cream cheese? Swap with dairy-free cream cheese or even a dollop of thick Greek yogurt as a filling replacement.
- Low on brown sugar? Substitute with coconut sugar or an equal amount of white granulated sugar.
Serving ideas and what to pair with this dish
- Coffee: A warm cup of coffee perfectly complements the spices of these muffins.
- Apple cider: The sweet and tart flavors of cider pair beautifully with the pumpkin and cream cheese.
- Vanilla yogurt: Serve these muffins alongside a dollop of vanilla yogurt for a satisfying breakfast.
- Whipped cream: Add a light dollop of whipped cream for an extra touch of indulgence as a dessert.

Gluten Free Pumpkin Cream Cheese Muffins
Equipment
- mixing bowl
- whisk
- muffin tin
- toothpick
- oven
Ingredients
- 1 cup gluten-free all-purpose flour
- 1 tsp baking powder
- 1 tsp baking soda
- 1/2 tsp salt
- 1 tsp ground cinnamon
- 1/2 tsp ground nutmeg
- 1/4 tsp ground ginger
- 1/4 tsp ground cloves
- 1/2 cup granulated sugar
- 1/2 cup brown sugar (packed)
- 1 cup canned pumpkin puree
- 2 large eggs
- 1/2 cup vegetable oil
- 1 tsp vanilla extract
- 4 oz cream cheese (softened)
- 1/4 cup powdered sugar
- 1/2 tsp vanilla extract (for cream cheese filling)
Instructions
- Preheat the oven to 350°F (175°C) and line a muffin tin with paper liners.
- In a large bowl, whisk together the gluten-free flour, baking powder, baking soda, salt, cinnamon, nutmeg, ginger, and cloves.
- In another bowl, combine the granulated sugar, brown sugar, pumpkin puree, eggs, vegetable oil, and 1 teaspoon of vanilla extract. Mix until smooth.
- Gradually add the dry ingredients to the wet ingredients and stir until just combined.
- In a small bowl, mix the softened cream cheese, powdered sugar, and 1/2 teaspoon of vanilla extract until creamy and smooth.
- Spoon about 1 tablespoon of the muffin batter into each muffin cup, followed by a teaspoon of the cream cheese mixture, and then top with another tablespoon of muffin batter.
- Use a toothpick or knife to gently swirl the cream cheese filling into the muffin batter for a marbled effect.
- Bake in the preheated oven for 18-20 minutes or until a toothpick inserted into the center comes out clean.
- Allow the muffins to cool in the pan for 5 minutes before transferring them to a wire rack to cool completely.
Notes
Nutrition

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