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Delicious Keto Pumpkin Cheesecake Muffin Bites You'll Love

Published: Dec 6, 2025 by Lina maywgor · This post may contain affiliate links ·

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As the aroma of warm spices fills my kitchen, I can’t help but feel a wave of comfort wash over me. Enter my Keto Pumpkin Cheesecake Muffin Bites—those little delights that seamlessly blend the season’s favorite flavors into an irresistible, guilt-free treat. With each bite, you’ll enjoy a satisfying low-carb indulgence that feels decadent but keeps your keto goals on track. These muffin bites are incredibly easy to whip up, making them a perfect solution for those busy days when you crave both comfort and convenience. Plus, they’re a fantastic crowd-pleaser, ensuring everyone at your table will be asking for seconds. Curious to see just how simple it is to create this heavenly fall-inspired dessert? Let’s dive into the recipe!

Keto Pumpkin Cheesecake Muffin Bites

Why You'll Adore These Muffin Bites?

Irresistible Flavor: The blend of pumpkin, cream cheese, and warm spices creates a symphony of taste that will delight your senses.

Guilt-Free Sweetness: Sweetened with erythritol, these bites are low-carb and keto-friendly, so you can indulge without the sugar rush.

Quick and Easy: Ready in just 33 minutes, you'll have a satisfying treat that fits perfectly into your busy lifestyle.

Perfect for Sharing: These mini muffins make for a delightful dessert at gatherings, ensuring everyone will love them—keto dieters or not!

Versatile Treat: Enjoy them as a snack, dessert, or even a breakfast option—endless possibilities await!

Keto Pumpkin Cheesecake Muffin Bites Ingredients

For the Cheesecake Layer
• 8 ounces cream cheese – ensures a velvety smooth texture in your muffin bites.
• ¼ cup powdered erythritol – a perfect low-carb sweetener that won’t spike your blood sugar.
• 2 large eggs – help bind the ingredients and add a rich flavor.
• 1 teaspoon vanilla extract – adds a warm depth that enhances the overall sweetness.

For the Pumpkin Mixture
• 1 can (15 ounces) pumpkin purée – brings the authentic fall flavor, making these bites truly special.
• ½ cup powdered erythritol – keeps these Keto Pumpkin Cheesecake Muffin Bites deliciously sweet without the carbs.
• ½ teaspoon ground cinnamon – provides that classic autumn aroma and spicy warmth.
• ¼ teaspoon ground nutmeg – adds a layer of richness to the pumpkin taste.
• ¼ teaspoon ground ginger – gives a subtle zing that enhances the spice blend.
• ⅛ teaspoon ground cloves – infuses a cozy, aromatic flavor that’s simply delightful.
• ¼ teaspoon salt – balances the sweetness and heightens the overall flavor.

For Baking
• Cooking spray – use this to generously coat your mini muffin tin for easy removal of the bites.

Step‑by‑Step Instructions for Keto Pumpkin Cheesecake Muffin Bites

Step 1: Preheat Your Oven
Begin by preheating your oven to 350°F (175°C). This ensures that your Keto Pumpkin Cheesecake Muffin Bites will bake evenly and rise to delicious perfection. While the oven warms up, gather all your ingredients and get your mini muffin tin ready for action.

Step 2: Prepare the Muffin Tin
Line a mini muffin tin with paper liners or generously spray each cup with cooking spray. This step is crucial to prevent your muffin bites from sticking and make the removal process smooth. Keep the prepared tin close by, as you’ll be filling it shortly.

Step 3: Make the Cheesecake Mixture
In a medium bowl, beat 8 ounces of cream cheese with ¼ cup of powdered erythritol until the mixture is creamy and smooth—this should take about 2-3 minutes. Once combined, crack in 1 large egg and add 1 teaspoon of vanilla extract, blending until entirely smooth. Set this delightful cheesecake mixture aside so it can stay fluffy while you prepare the pumpkin layer.

Step 4: Whisk the Pumpkin Mixture
In another bowl, combine 15 ounces of pumpkin purée with the remaining egg and ½ cup of powdered erythritol. Mix thoroughly until blended, ensuring a silky consistency. Next, sprinkle in ½ teaspoon of ground cinnamon, ¼ teaspoon of ground nutmeg, ¼ teaspoon of ground ginger, ⅛ teaspoon of ground cloves, and ¼ teaspoon of salt—the fall spices are what make your Keto Pumpkin Cheesecake Muffin Bites come alive!

Step 5: Assemble the Muffin Bites
Using a spoon, carefully fill each muffin cup with about 1 tablespoon of the cheesecake mixture. Following this, add another tablespoon of the pumpkin mixture on top of the cheesecake. To create an enticing swirl, use a toothpick to gently stir the two mixtures together—this visual marbling will make the bites look wonderfully appealing.

Step 6: Bake to Perfection
Now it’s time to bake your Keto Pumpkin Cheesecake Muffin Bites! Place the muffin tin into the preheated oven and bake for 16 to 18 minutes. Keep an eye on them; they’re done when a toothpick inserted in the center comes out mostly clean, indicating a perfectly baked treat.

Step 7: Cool Down
Once baked, remove the muffin tin from the oven and let it cool for about 10 minutes. This is the perfect time to catch a whiff of that heavenly aroma. After 10 minutes, transfer the muffin bites to a wire rack to cool completely; this will help them firm up nicely.

Step 8: Chill Before Serving
To enhance the flavors and achieve a satisfying texture, chill the Keto Pumpkin Cheesecake Muffin Bites in the refrigerator for at least 1 hour before serving. This simple step elevates your homemade treat and allows everyone to enjoy these delightful bites at their best.

Keto Pumpkin Cheesecake Muffin Bites

What to Serve with Keto Pumpkin Cheesecake Muffin Bites

As you take a moment to appreciate the warm, spiced aroma wafting from your kitchen, let's craft a complete meal that amplifies the joy of your delightful muffin bites.

  • Creamy Mashed Cauliflower: This low-carb alternative to traditional mashed potatoes adds a rich, buttery texture that perfectly complements the pumpkin flavor.

  • Savory Spinach Salad: A fresh mix of spinach, walnuts, and feta drizzled with balsamic vinaigrette adds a crisp contrast, balancing the sweetness of the muffin bites deliciously.

  • Roasted Brussels Sprouts: Their caramelized edges and slightly nutty flavor create an irresistible harmony with the warm spices of the muffin bites.

  • Buttery Garlic Green Beans: Lightly sautéed green beans tossed in garlic and butter offer a tender yet crisp bite to round out your meal with vibrant flavor.

  • Chai Tea Latte: The warm spices in chai echo those in your muffin bites, creating a cozy beverage that enhances the experience of your dessert.

  • Cinnamon Infused Almond Milk: This soothing drink not only pairs perfectly with your muffin bites but also serves as a comforting treat for a cozy night in.

  • Sugar-Free Chocolate Mousse: Ending your meal with a rich, velvety dessert can satisfy your sweet tooth while keeping things guilt-free. The bold chocolate flavor contrasts nicely with the sweetness of the muffins.

Indulging in these pairings creates a wonderful experience brimming with comforting flavors and textures that enhance your delightful Keto Pumpkin Cheesecake Muffin Bites!

Make Ahead Options

These Keto Pumpkin Cheesecake Muffin Bites are perfect for meal prep enthusiasts! You can make the cheesecake and pumpkin mixtures up to 24 hours in advance and refrigerate them in airtight containers to maintain their freshness. Simply mix the two batters as instructed and store them separately. When you're ready to bake, just fill the muffin tins with the prepared mixtures and swirl them together as outlined in the recipe. This not only saves time on busy days but also ensures that your treats are just as delicious and flavorful when baked fresh. Enjoy the convenience of having these delightful bites ready in a pinch!

Keto Pumpkin Cheesecake Muffin Bites Variations

Feel free to get creative with these delightful bites and tailor them to your taste preferences or dietary needs!

  • Dairy-Free: Substitute cream cheese with a plant-based alternative like cashew cream for a creamy texture without dairy.

  • Nut-Free: Swap out any nut-based substitutes for seeds like pumpkin seeds, ensuring a nut-free delight everyone can enjoy!

  • Sugar-Free: Utilize stevia or monk fruit sweetener as an alternative to erythritol, keeping the sweetness without extra carbs.

  • Pumpkin Spice: Boost the flavor further by adding a teaspoon of pumpkin spice mix to the pumpkin mixture for extra warmth and richness.

  • Chocolate Drizzle: After cooling, melt some sugar-free chocolate and drizzle it over the muffin bites for a decadent treat.

  • Extra Crunch: Add some crushed nuts (like pecans or walnuts) to the muffin batter before baking for a delightful crunch and added texture.

  • Spicy Kick: Incorporate a pinch of cayenne pepper or chili powder into your pumpkin mixture for a subtle heat that enhances the flavor profile.

  • Fruit Swirl: Introduce a layer of unsweetened apple or cranberry puree before baking to create a fruity twist that complements the pumpkin perfectly.

How to Store and Freeze Keto Pumpkin Cheesecake Muffin Bites

Fridge: Store your Keto Pumpkin Cheesecake Muffin Bites in an airtight container in the refrigerator for up to 7 days; they remain deliciously moist and flavorful.

Freezer: For longer storage, freeze the muffin bites in a single layer on a baking sheet, then transfer to a freezer-safe container for up to 3 months. Thaw overnight in the fridge when ready to enjoy.

Reheating: To reheat, warm them in the microwave for about 15-20 seconds or until just warmed through. This will revitalize their creamy texture and rich flavors.

Serving Suggestion: Serve chilled or slightly warmed for the best taste experience!

Tips for the Best Keto Pumpkin Cheesecake Muffin Bites

  • Room Temperature Ingredients: Ensure your cream cheese and eggs are at room temperature for a smoother batter and better blending of flavors.

  • Proper Swirling: Don’t overmix the cheesecake and pumpkin layers. A gentle swirl with a toothpick creates beautiful marbling while maintaining their distinct flavors in your Keto Pumpkin Cheesecake Muffin Bites.

  • Watch Baking Time: Every oven is different! Check your muffin bites a minute or two early to prevent overbaking, ensuring the perfect texture.

  • Cooling is Key: Allowing the bites to cool properly helps them set and enhances the flavors. Patience pays off in the chilling stage for the best results!

  • Storage Tips: Keep leftovers in an airtight container in the refrigerator for up to a week; they taste great chilled and make a convenient snack!

Keto Pumpkin Cheesecake Muffin Bites

Keto Pumpkin Cheesecake Muffin Bites Recipe FAQs

How do I choose the right pumpkin purée?
When selecting pumpkin purée, look for 100% pure pumpkin without any additives—check the label to ensure it doesn't contain any added sugars or spices. Fresh, bright-colored purée is ideal, while avoid any that exhibits dark spots or excess liquid; these can affect the flavors and consistency of your muffins.

What’s the best way to store Keto Pumpkin Cheesecake Muffin Bites?
Absolutely! To keep your muffin bites fresh, store them in an airtight container in the refrigerator, where they will remain delicious for up to 7 days. For optimal taste, enjoy them chilled or slightly warmed in the microwave for 15-20 seconds—this will awaken their creamy texture and flavors.

Can I freeze Keto Pumpkin Cheesecake Muffin Bites?
Yes, you can! For freezing, place your muffin bites in a single layer on a baking sheet to prevent sticking. Once frozen solid, transfer them to a freezer-safe container and they’ll be good for up to 3 months. When you're ready to enjoy, thaw them overnight in the fridge. If you want, a quick 15-20 second warm-up in the microwave can refresh their delightful taste.

What should I do if my muffin bites are too dry?
If your Keto Pumpkin Cheesecake Muffin Bites turn out dry, it may be due to overbaking. Always keep an eye on them during the last few minutes; they should be set but moist, with a toothpick coming out mostly clean, not completely dry. Additionally, ensure to use room temperature ingredients for a smoother blend that helps retain moisture.

Are these muffin bites suitable for people with dairy allergies?
Unfortunately, these muffin bites contain cream cheese and eggs, making them unsuitable for those with dairy allergies. However, a dairy-free cream cheese alternative can work in place of regular cream cheese, and flax eggs can be used in lieu of eggs for those following a vegan or dairy-free diet. Always double-check ingredient options for your specific dietary needs.

Can I adjust the sweetness for the Keto Pumpkin Cheesecake Muffin Bites?
Very! The beauty of using erythritol is that you can adjust the sweetness to your liking. Start with the suggested amounts and feel free to add more erythritol to the cheesecake and pumpkin mixtures, tasting as you go. It’s all about making these delightful bites perfect for your palate while keeping them low-carb!

Keto Pumpkin Cheesecake Muffin Bites

Delicious Keto Pumpkin Cheesecake Muffin Bites You'll Love

Enjoy these Keto Pumpkin Cheesecake Muffin Bites, a guilt-free treat with the perfect blend of flavors.
Print Recipe Pin Recipe
Prep Time 15 minutes mins
Cook Time 18 minutes mins
Chill Time 1 hour hr
Total Time 33 minutes mins
Servings: 12 muffin bites
Course: mini cakes
Cuisine: American, keto
Calories: 100
Ingredients Equipment Method Nutrition Notes

Ingredients
  

Cheesecake Layer
  • 8 ounces cream cheese ensures a velvety smooth texture
  • ¼ cup powdered erythritol a perfect low-carb sweetener
  • 2 large eggs help bind the ingredients
  • 1 teaspoon vanilla extract adds a warm depth
Pumpkin Mixture
  • 1 can (15 ounces) pumpkin purée brings authentic fall flavor
  • ½ cup powdered erythritol keeps muffins deliciously sweet
  • ½ teaspoon ground cinnamon provides classic autumn aroma
  • ¼ teaspoon ground nutmeg adds richness to the taste
  • ¼ teaspoon ground ginger gives a subtle zing
  • ⅛ teaspoon ground cloves infuses cozy flavor
  • ¼ teaspoon salt balances sweetness and enhances flavor
Baking
  • cooking spray for easy removal of muffin bites

Equipment

  • mini muffin tin
  • Mixing bowls
  • Whisk
  • hand mixer
  • toothpick

Method
 

Baking Instructions
  1. Preheat your oven to 350°F (175°C).
  2. Prepare your mini muffin tin by lining it with paper liners or spraying with cooking spray.
  3. In a bowl, beat cream cheese and erythritol until smooth. Add in 1 egg and vanilla extract, blending until smooth.
  4. In another bowl, mix pumpkin purée with remaining egg and erythritol until blended. Add spices and salt.
  5. Fill each muffin cup with 1 tablespoon of cheesecake mixture followed by 1 tablespoon of pumpkin mixture. Swirl together with a toothpick.
  6. Bake for 16-18 minutes until a toothpick comes out mostly clean.
  7. Let cool for 10 minutes in the tin, then transfer to a wire rack to cool completely.
  8. Chill in the refrigerator for at least 1 hour before serving.

Nutrition

Serving: 1muffin biteCalories: 100kcalCarbohydrates: 6gProtein: 3gFat: 8gSaturated Fat: 5gCholesterol: 50mgSodium: 90mgPotassium: 100mgFiber: 2gSugar: 1gVitamin A: 1000IUCalcium: 50mgIron: 0.5mg

Notes

Ensure cream cheese and eggs are at room temperature for better blending. Don't overmix the layers for beautiful marbling. Check baking time as ovens vary.

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