Low Fat Roasted Butternut Squash Muffins


These squash muffins are another gem from the CLIF Bar holiday series. Clif Bar is celebrating the return of their popular seasonal flavors (Spiced Pumpkin Pie, Iced Gingerbread, and Peppermint Stick) with recipes from the athletes and foodies at CLIF Bar that evoke holiday memories. We already highlighted the chocolate chip banana bread recipe chosen by Todd Wells, Olympic Mountain Bike and Cyclocross racer, but now it’s Lindsey Corbin’s turn.

Low Fat Roasted Butternut Squash Muffins Recipe - Deliciously Dairy-Free!

Lindsey is a Professional Triathlete and Team CLIF Bar Athlete. Her favorite outdoor holiday tradition is going on adventure runs with friends and her dog, during the winter time in Montana. No doubt that they wouldn’t love to arrive home to a fresh batch of these low fat squash muffins! They are sweet, but with a touch of wholesome.

For ease, you can substitute the mashed squash with canned pumpkin or squash puree. However, if you want to enjoy the original squash muffins recipe, as is, then simply roast up a fresh seasonal squash at home …

How to roast a butternut squash: Preheat your oven to 350°F. Halve the butternut squash and scoop out the seeds. Lightly oil the cut part of the squash, and place it on a pan, cut side up, with 1 inch of water 5. Bake for 1 hour. Let cool, scoop out the flesh, and mash or puree it.

Special Diet Notes: Roasted Butternut Squash Muffins

By ingredients, this recipe is dairy-free / non-dairy, optionally nut-free, peanut-free, optionally soy-free, optionally vegan / plant-based, and vegetarian.

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Low Fat Roasted Butternut Squash Muffins
Prep time
Cook time
Total time
Recipe by Lindsey Corbin, a Professional Triathlete and Team CLIF Bar Athlete.
Serves: 12 muffins
  • 1-1/2 cups all-purpose or whole wheat pastry flour
  • 2 teaspoons ground cinnamon
  • 1 teaspoon baking soda
  • ¼ teaspoon salt
  • Dash each of nutmeg, allspice, ginger & cardamom
  • 1 cup mashed roasted butternut squash (see in-article note for roasting squash - can substitute with canned pumpkin puree)
  • ½ cup brown sugar
  • ⅓ cup plain dairy-free yogurt*
  • ¼ cup unsweetened applesauce
  • 3 tablespoons honey
  • 1 egg or 1 egg replacer equivalent
  • Hand full of toasted and chopped pecans, optional
  1. Preheat your oven to 350ºF and grease two muffin tins or line them with cupcake liners.
  2. Combine the flour, cinnamon, baking soda, salt, nutmeg, allspice, ginger, and cardamom in a medium-bow.
  3. Blend the squash, sugar, yogurt, applesauce, honey and egg in a mixing bowl.
  4. Gently fold the dry ingredients into wet ingredients, being careful not to overmix.
  5. Gently stir in the nuts, if using.
  6. Fill each muffin cup ⅔ full.
  7. Bake for 20 to 25 minutes.
Yogurt Options: If you can't locate a suitable dairy-free yogurt at your local grocers (many now carry soy-based and coconut-based varieties), then try substituting mashed banana or mashed avocado for the yogurt. If eggs are okay for you, then you could also use 2 eggs, omit the yogurt, and increase the applesauce to ⅓ cup.

Vegan Option: Use the egg replacer, substitute agave nectar for the honey, and make sure you choose a vegan brown sugar (most organic brands are vegan).

About Author

Alisa is the founder of GoDairyFree.org, Senior Editor for Allergic Living magazine, and author of the best-selling dairy-free book, Go Dairy Free: The Guide and Cookbook for Milk Allergies, Lactose Intolerance, and Casein-Free Living. Alisa is also a professional recipe creator and product ambassador for the natural food industry.


  1. OMG. I too have a butternut squash that i keep looking at and wondering what can I make. Thank, thank, thank you. Im on it and thank you for the info on substitutes for eggs and yogurt.

  2. How do you do this?! I just made roasted acorn squash bread today! I was going to make the bread into muffins, but I didn’t want to clean the muffin tin. Delicious and I love that it isn’t pumpkin!

  3. Hooray for butternut! Pumpkin tends to get all the love each autumn, so I’m glad butternut can share the spotlight a little bit in with this delicious muffin entry.

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