Best Keto Pumpkin Muffins with Cream Cheese Frosting


These Keto Pumpkin Muffins with their delicious Cream Cheese Frosting are perfectly moist, fluffy, and delectable! Pumpkin muffins are a great option for breakfast, dessert, or snacks!

Sink your teeth into one of these delicious pumpkin muffins and taste the creamy tang of the incredible cream cheese frosting! 

We really love these keto muffins because they’re so easy to make and are the perfect breakfast or dessert when you’re in a hurry! Whip up a batch and breakfast is covered for the week! Dessert too, if you have more self control than me. 

If you feel like you’ve been missing out on the pumpkin fun this season, these pumpkin muffins are a great way to enjoy the official food of the season without indulging in the sugar and carbs that typically accompany it. 

These muffins are great year round though! 

These keto pumpkin muffins are always a crowdpleaser, even for a crowd that isn’t living a low-carb/keto lifestyle. Most people can’t even tell that they are “healthy” muffins because the taste and texture are spot on!

close up of keto pumpkin muffin with cream cheese frosting

Is Pumpkin Keto Friendly?

The answer to this question, like the answer to every “is _ keto?” question is: it depends. 

Too much of just about anything isn’t keto. As we always say, ketosis is a metabolic state, not an ingredient. So pumpkin is keto if it fits in your macros. Too much pumpkin can cause your body to fall out of a state of ketosis, but the amount in one or two of these muffins shouldn’t affect your state of ketosis at all, assuming your pumpkin intake is spread out over several servings. 

What Is Pumpkin Puree?

It is extremely important to note that pumpkin puree is NOT the same as pumpkin pie filling. Pumpkin pie filling is loaded with sugar and other additives that make traditional pumpkin pie so sweet and unhealthy. But pumpkin puree typically doesn’t contain any added sugar or spices. Make sure that your pumpkin puree is labeled as 100% pumpkin or “canned pumpkin.” 

Said simply, Pumpkin Puree is just cooked and mashed pumpkin. If you prefer to make your own puree, that would be a great option too.

How To Make The Best Keto Pumpkin Muffins

almond flour in mixing bowl

(scroll down for full recipe card with full list of ingredients & instructions)

In a mixing bowl, start adding all ingredients for the cupcakes. Add in almond flour.

baking powder of mixing bowl

Add in baking powder and baking soda.

pumpkin pie spice over mixing bowl

Add in cinnamon, vanilla extract, pumpkin pie spice.

Pumpkin Puree over mixing bowl

Add in pumpkin puree.

powdered sweetener over mixing bowl

Add in Lakanto Powdered Sweetener.

all ingredients ready to be mixed in mixing bowl

Blend together until smooth and spoon the mixture into 12 cupcake liners in a muffin tin, filling them almost all of the way full. 

keto pumpkin muffins muffin pan before the cream cheese frosting

Bake for 25-30 minutes until cooked through. In a mixing bowl, blend together frosting ingredients until smooth. 

top view of keto pumpkin muffins in muffin baking pan
keto pumpkin muffins in the muffin baking pan

How To Store Keto Pumpkin Muffins

If you plan to enjoy these keto pumpkin muffins with cream cheese in the very immediate future, we recommend leaving them out on the counter at room temperature. However, if you plan to enjoy them over several days, it’s best to store them in an airtight container where they will last for up to a week. If you make a larger batch and want to store them for an extended period of time, they will keep in the freezer for several months if stored properly in an airtight container.

angled top view of three keto pumpkin muffins served on a plate

Best Keto Sweetener: Lakanto Sweetener

As usual, we used Lakanto’s Monkfruit Powdered Sweetener for these keto pumpkin muffins, for the muffins themselves and the cream cheese frosting! 

Monkfruit is our all-time favorite keto-friendly sweetener for so many reasons:

  • Its a natural sweetener
  • It tastes amazing, having no aftertaste or cooling effect like other sweeteners
  • It has a 1:1, cup for cup ratio to sugar, making it extremely easy to convert traditional recipes into keto ones

Lakanto’s Monkfruit is hands down the best keto-friendly sweetener on the market and that’s why we use it for everything!

If you want to try Monkfruit for the first time, or if you just need to restock, shop Lakanto’s website and explore all of the incredible products they have made available. They have a variety of sweeteners that include a sugar substitute, a brown sugar substitute, and a powdered sugar substitute, just to name a few. 

And don’t forget to use our code, “BUTTERTOGETHER” at checkout to save 20% OFF your ENTIRE purchase!

top view of three keto pumpkin muffins on a plate

More Keto Pumpkin Recipes:

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45 minutes

12 servings


For Cupcakes
2 cups Almond Flour
1 tsp Baking Powder
1/2 tsp Baking Soda
2 tsp Vanilla Extract
1/2 tsp Cinnamon
1/2 tsp Pumpkin Pie Spice
1 cup Pumpkin Puree
1/2 cup Lakanto Powdered Sweetener
5 Large Eggs
8 tbsp Butter, softened
For Icing
6 oz Cream Cheese
1/2 cup Lakanto Powdered Sweetener
1 tsp Vanilla Extract
1/4 cup Heavy Whipping Cream
Nutritional Information
279 Calories
23.5g Total Fat
3.5g Net Carbs
8g Protein


Preheat the oven to 350 degrees.
In a mixing bowl, blend together the ingredients for the cupcakes until well blended and smooth.
Spoon the mixture into 12 cupcake liners in a muffin tin, filling them almost all of the way full.
Bake for 25-30 minutes until cooked through.
Let the cupcakes cool completely.
In a mixing bowl, blend together the cream cheese, sugar substitute and vanilla until smooth.
Add in the heavy whipping cream and beat on high until smooth and creamy.
Ice the cupcakes and serve.

Nutritional Disclaimer: We are not certified nutritionists. Nutritional data is provided as a courtesy. The information provided is calculated through a free-web based nutrition calculator and is not guaranteed to be accurate. To ensure we provide you with good information, we look at a variety of calculators.