There’s something about Pumpkin Cheesecake Muffins that feels like a cozy sweater for your taste buds. Maybe it’s the cinnamon and nutmeg dancing in the background, or maybe it’s that surprise swirl of creamy cheesecake in the middle (which, let’s be honest, feels like finding a little treasure inside your muffin). As a mom of three, I’m always on the hunt for recipes that check all the boxes: simple, family-approved, and absolutely delicious. These muffins? Oh, they’re all that and more.
And let’s be real—pumpkin season doesn’t last forever. So when it’s here, I go all in. (Yes, even the pumpkin candles are burning while these bake in my oven!)
Table of Contents
Why You’ll Love These Pumpkin Cheesecake Muffins
- Perfect balance of sweet pumpkin spice and creamy cheesecake filling.
- Easy enough for busy mornings but impressive enough for guests.
- They make your kitchen smell like fall baked into one perfect bite.
- Great for make-ahead snacks, brunches, or just because you need pumpkin.
What Do Pumpkin Cheesecake Muffins Taste Like?
Imagine biting into a soft, moist pumpkin muffin—spiced just right—then suddenly hitting that velvety cheesecake center. It’s like pumpkin pie and cheesecake had a baby, and the result is something you’ll want to keep all to yourself (but you’ll share… maybe).
Ingredients You’ll Need for Pumpkin Cheesecake Muffins

When it comes to baking the best Pumpkin Cheesecake Muffins, every ingredient plays its part like a member of a cozy fall orchestra. The pumpkin brings moisture and that unmistakable autumn flavor, while the cheesecake filling makes each bite downright irresistible. Here’s what you’ll need:
For the Muffins:
- 1 ½ cups all-purpose flour – This is the foundation of your muffins. Regular flour works beautifully, but if you’re gluten-free, swap it for your favorite gluten-free blend.
- 1 cup sugar – Sweetness that balances the tang of the cheesecake. You can also try coconut sugar for a slightly deeper flavor.
- 1 tsp baking powder & ½ tsp baking soda – These two leavening agents are what give your muffins that bakery-style lift. Think of them as your muffin’s air-pumps!
- 1 tsp cinnamon & ½ tsp nutmeg – The spice duo that makes these muffins scream “fall.” Cinnamon adds warmth, while nutmeg brings just a hint of coziness.
- ½ tsp salt – A pinch of salt may seem small, but it deepens all the sweet and spiced flavors.
- ½ cup vegetable oil – Oil keeps these muffins soft and moist. You could also use melted coconut oil if you love a hint of tropical flavor.
- 2 large eggs – The glue that holds everything together and adds richness.
- 1 cup pumpkin puree – The star of the show! Pumpkin not only adds flavor but also keeps your muffins tender. Be sure to grab pure pumpkin, not pumpkin pie mix.
- 1 tsp vanilla extract – Just enough to bring all the flavors together in harmony.
For the Cheesecake Filling:
- 8 oz cream cheese, softened – Room temperature cream cheese is key for a smooth, lump-free filling.
- ¼ cup sugar – Just a touch of sweetness to balance the tangy cream cheese.
- 1 egg – Helps bind the filling so it sets beautifully in the oven.
- 1 tsp vanilla extract – Adds that bakery-style depth of flavor.
💡 Pro tip: These ingredients are pantry-friendly and easy to find. If you’re like me, you probably already have most of them tucked away. And if you’re in the mood for more cozy fall baking, you might also love my Apple Pumpkin Streusel Muffins—they’re another pumpkin-packed favorite.
Step-by-Step Instructions for Pumpkin Cheesecake Muffins
Baking these Pumpkin Cheesecake Muffins is like a little fall ritual in my kitchen. The smell of cinnamon and nutmeg floating through the house? Instant comfort. Don’t worry, even if you’re not an expert baker, this recipe walks you through each step with ease. Here’s how to make them:
Step 1: Preheat Your Oven
Set your oven to 350°F (175°C) and line a muffin tin with paper liners. Using liners is important here because the cheesecake filling can get a little sticky without them. (Trust me, I learned that the hard way once.) If you want that classic bakery look, you can also use reusable silicone muffin cups.
Step 2: Mix Your Dry Ingredients
In a medium bowl, whisk together your flour, sugar, baking powder, baking soda, cinnamon, nutmeg, and salt. Whisking not only blends everything evenly but also adds a touch of air, which helps keep your muffins light and fluffy.
Step 3: Blend the Wet Ingredients
Grab a large bowl and combine the vegetable oil, eggs, pumpkin puree, and vanilla extract. Stir until smooth and vibrant. This mixture smells like pure fall happiness already. The pumpkin is what makes these muffins moist, so don’t skimp! If you’ve ever tried my Cinnamon Donut Bread, you know how important that tender crumb can be—it’s the same magic here.
Step 4: Combine Wet and Dry
Slowly fold the dry mixture into the wet mixture. The trick here is to mix until everything is just combined. Overmixing can make your muffins dense, and no one wants that. Think “gentle folding” like you’re tucking the batter into bed.
Step 5: Make the Cheesecake Filling
In another bowl, beat together the cream cheese, sugar, egg, and vanilla extract until smooth and creamy. This is where the “cheesecake” in Pumpkin Cheesecake Muffins comes to life. Room-temperature cream cheese works best here to avoid lumps.
Step 6: Assemble the Muffins
- Fill each muffin liner halfway with the pumpkin batter.
- Add a spoonful of the cheesecake filling in the center.
- Cover with a bit more pumpkin batter until each liner is about ¾ full.
This layering gives you that dreamy swirl of flavors in every bite.
Step 7: Bake to Pumpkin-Perfect Bliss
Pop your muffin tin in the oven and bake for 20–25 minutes. To test for doneness, insert a toothpick into the side of a muffin (avoid the cheesecake center); it should come out clean.
Step 8: Cool and Enjoy
Let the muffins cool in the pan for 5 minutes before transferring them to a wire rack. This keeps them from overbaking in the hot pan. Now comes the best part—pour yourself a cup of coffee, take a bite, and let the creamy cheesecake surprise make your morning.
Tips and Tricks for Perfect Pumpkin Cheesecake Muffins
- Room-temp cream cheese is your best friend—say goodbye to lumps.
- Don’t overmix your batter; you want tender muffins, not dense ones.
- Freeze for later—these freeze beautifully for up to 3 months.
- Add a streusel topping if you’re feeling fancy (and I usually am!).
Funny story: the first time I made these, I accidentally ate two before my kids even got home. Now they guard the muffin tin like it’s their Halloween candy stash.
Storage
- Fridge: Store in an airtight container up to 5 days.
- Freezer: Wrap individually and freeze up to 3 months. Reheat in the microwave or let thaw overnight.
FAQs
Can I use fresh pumpkin instead of canned puree?
Yes! Just make sure it’s well-blended and not watery.
Do I need cupcake liners?
Highly recommended. The cheesecake filling can stick without them.
Can I make these gluten-free?
Swap the all-purpose flour for a good gluten-free blend.
Conclusion
These Pumpkin Cheesecake Muffins are fall wrapped up in muffin form—warm, cozy, and irresistible. Whether you’re baking them for a school snack, a brunch with friends, or just because you want something that tastes like October in a bite, these muffins won’t let you down.
So go ahead, bake a batch today. And if you do, snap a picture and tag me—I’d love to see your muffins (the baked kind, of course 😉).
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