These tender, lightly spiced paleo and gluten-free butternut squash muffins are topped with a crisp pecan streusel.

The cooling off period has arrived; crisp mornings, cooling evening breezes, and sunny days minus the suffocating heat of summer all signal the arrival of fall.
Flanked by sweltering summer temperatures on one side and the iciness of winter on the other, the beginning of fall is the time of year we get a short respite from the extremes; some time to cool off and prepare for what’s ahead. The days get milder, night falls earlier, all eyes shift towards the holiday season up ahead and that means one thing – pumpkins and squash as far as you can see…

In a season that’s known for its plethora of pumpkin flavored eats and treats, I actually tend to gravitate more towards the other winter squashes like kabocha, acorn and of butternut .
With its vibrant orange color and sweet flesh, butternut squash has all the fall-inspired appeal of pumpkin but more flavorful and with less stringy mess. And while it’s delicious in savory dishes, it’s also incredible in sweets and baked goods like these gluten-free butternut squash muffins.

The subtle sweetness of the squash coupled with fall flavors like maple, pecan, cinnamon and nutmeg make these a natural for this time of year. You can use homemade butternut puree from steamed or roasted squash for the most robust flavor or make life easy and simple use a can.
They’re soft and tender and capped with a sprinkling of cinnamon pecan streusel for crunch. Delicious served plain or with a smear of nut butter (pecan butter is my favorite with these), they make a wonderful light breakfast or an afternoon snack.
Special enough to serve for the holidays but easy enough to make them an everyday eat, these butternut squash pecan muffins are the perfect treat to ring in the fall season.
More butternut squash recipes:

Gluten-Free Butternut Squash Muffins
These tender, lightly spiced paleo and gluten-free butternut squash muffins are topped with a crisp pecan streusel.
Ingredients
For the Muffins:
- 3 large eggs
- ¼ cup/60ml maple syrup
- 3 Tablespoons/45ml coconut oil
- ½ cup/103g butternut squash puree (or one small butternut squash, halved and seeds removed if making your own puree)
- 1 teaspoon vanilla extract
- ¼ cup/28g coconut flour
- 2 Tablespoons/12g tapioca flour
- ⅛th teaspoon fine sea salt
- 1 teaspoon baking powder (grain-free)
- ½ teaspoon ground cinnamon
- ⅛th teaspoon fresh grated nutmeg
For the Cinnamon Pecan Streusel:
- 2 teaspoons/6g maple sugar
- 1 teaspoon/5g maple syrup
- ¼ cup/30g pecans, chopped
- 2 teaspoons/6g tapioca flour
- 1 teaspoon/5g coconut oil
- ⅛th teaspoon ground cinnamon
- Pinch of sea salt
Instructions
- Preheat oven to 400° F.
- Drizzle cut butternut squash with olive oil to coat. Place butternut squash face down on a baking sheet. Transfer to oven, and cook until tender, 25 to 30 minutes.
- Flip squash halves over and set sheet on a wire rack until cool enough to handle. Scoop flesh into a blender or food processor and puree until smooth. Refrigerate in an airtight container until needed.
- In a large bowl, combine the eggs, maple syrup, oil, ½ cup of the butternut squash puree, and vanilla. Sift in the coconut flour, tapioca, salt, baking powder and spices. Whisk until well incorporated.
- Fill six paper-lined muffin cups with batter, set aside.
- In a small bowl, combine the maple sugar, maple syrup, pecans, tapioca flour, oil, cinnamon and a pinch of salt. Sprinkle over batter.
- Bake at 400° for 18-20 minutes or until a toothpick inserted in the center comes out clean. Cool for 5 minutes before removing from pan to a wire rack.
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Nutrition Information:
Yield:
6Serving Size:
1Amount Per Serving: Calories: 271Total Fat: 21gSaturated Fat: 15gTrans Fat: 0gUnsaturated Fat: 5gCholesterol: 70mgSodium: 372mgCarbohydrates: 17gFiber: 1gSugar: 9gProtein: 4g
Nutritional information for recipes contained on this website, such as calories, fat, carbs, etc. are only estimates and are not guaranteed to be accurate.

Sylvie Shirazi is the recipe developer and food photographer behind Gourmande in the Kitchen. For the last 10 years she's been making eating more healthfully easy and accessible with gluten-free, grain-free, paleo and vegan recipes that are free from processed ingredients.
Tricia says
These are honestly the best muffins I’ve ever had or made! Absolute perfection!!! Making my second batch this week now! Thank you!!!