Maple Butternut Squash Quinoa Breakfast Bake (VIDEO)
If you’re looking for something new, flavorful, sweet, and full of fall vibes for breakfast, then you will LOVE this Maple Butternut Squash Quinoa Breakfast Bake! It’s gluten-free, dairy-free, vegetarian, refined sugar-free, and SO good. I love making this recipe the night before and having it ready to go for breakfast in the morning (and all week long)!
The butternut squash bakes to tender perfection, the quinoa is the perfect soft texture, and the pecans and pomegranate arils add the perfect crunchy balance. And bonus points: it makes your house smell amazing! All you need is one bowl and a baking dish to make this healthy fall breakfast recipe.
You’ll Also Love: Maple Gluten-Free Donuts

Ingredients/Substitutions
- Eggs
- Plant-Based Milk
- Apple Sauce
- Maple Syrup
- Vanilla
- Cinnamon
- Baking Powder/Salt
- Uncooked Quinoa
- Cubed Butternut Squash
- Chopped Pecans (plus more for topping)
- Pomegranate Arils

How to Make Maple Butternut Squash Quinoa Breakfast Bake
It only takes 10 minutes of prep time to put this easy recipe together! Here’s how to make Maple Butternut Squash Quinoa Breakfast Bake:
- In a large mixing bowl, whisk together the liquid ingredients.
- Whisk in the dry ingredients and dry quinoa.
- Fold in the cubed butternut squash, pecans, and pomegranate arils.
- Pour into a baking dish or casserole dish and bake for 45-55 minutes at 375 degrees F.
- Let cool, add toppings of choice, and enjoy!
Topping Ideas
- Chopped Nuts
- Vanilla Greek Yogurt
- Maple Syrup
- Nut Butter
- Caramel Sauce




How to Adapt this Breakfast Bake
- Use any nuts you prefer – chopped walnuts and cashews would work well!
- Drizzle the bake with honey if you don’t have maple syrup.
- You can use any type of nut milk (or regular milk) for this recipe.
- Add seeds for an extra boost of nutrients, like sunflower or pumpkin seeds!
- To make this vegan, simply replace the eggs with flax egg.
Refrigerating/Freezing Leftovers
This recipe can be refrigerated or frozen for later! To refrigerate, let the quinoa bake cool completely. Add an airtight lid (or store in an airtight container) and refrigerate for up to 4-5 days. To freeze, let cool in the fridge in a container without a lid, then add the lid and move to the freezer. Store frozen for up to 3 months!
To reheat, simply place in on a microwave-safe dish and microwave for a few minutes! Add toppings and enjoy.

More Healthy Breakfast Recipes
- Pumpkin Baked Oatmeal
- Easy Butternut Squash Pancakes
- Fall Breakfast Quinoa Bowl
- Skillet Sweet Potato Kale Hash
- Healthy Pumpkin Bread Recipe
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Maple Butternut Squash Quinoa Breakfast Bake
Equipment
Ingredients
- 2 large eggs
- 2 cups plant-based milk
- 1/3 cup apple sauce
- 3 Tablespoons maple syrup
- 2 teaspoons vanilla
- 2 1/2 teaspoons cinnamon
- 1/2 teaspoon salt
- 1 teaspoon baking powder
- 1 1/4 cup uncooked quinoa
- 2 cups cubed butternut squash
- 1/4 cup chopped pecans (plus more for topping)
- 1/3 cup pomegranate arils
Instructions
- Preheat the oven to 375 Fahrenheit.
- In a mixing bowl, whisk the eggs, milk, apple sauce, maple syrup and vanilla.
- Whisk in the cinnamon, salt, baking powder, and quinoa.
- Mix in the butternut squash, pecans, and pomegranate.
- Transfer to a baking pan.
- Top with additional pomegranate if desired.
- Bake for 45-55 minutes, uncovered, or until the quinoa and squash are cooked through and a toothpick comes out clean.
- Let cool slightly, then top with more maple syrup, nut butter or chopped nuts and enjoy!
Video
Notes
- Use any nuts you prefer – chopped walnuts and cashews would work well!
- Drizzle the bake with honey if you don’t have maple syrup.
- You can use any type of nut milk (or regular milk) for this recipe.
- Add seeds for an extra boost of nutrients, like sunflower or pumpkin seeds!
- To make this vegan, simply replace the eggs with flax egg.

Chef Dennis says:
I hope it’s breakfast soon! This Maple Butternut Squash Quinoa is so yummy!
Marina says:
Love this for breakfast and my daughter thinks it’s absolutely delicious
Audrey says:
Perfect for a winter or fall breakfast.
Julie says:
Oh my!!!! This looks amazing!!! I love the combination of flavors for the squash and quinoa. SUch a great healthy breakfast.
Deborah Brooks says:
What an interesting twist on breakfast! I cannot wait to try this combo
Rosario Arecco says:
Wow this is really delicious! just perfect for fall, thanks for sharing.
Bridget Looram says:
When do you add the pecans and pomegranate? Before or after baking!
Sue H says:
I made it. We ate it. We loved it !
We have been traveling the country the last 6 yrs in our 5th-wheel RV. While we are COVID-based in AZ this year, I most commonly use a small toaster oven so as not to heat the place up (it’s been well over 100 degrees everyday for nearly 3 months)
I made this in a 6×9 and baked it nearly twice as long as your directions (yes, still cooler!) and it was wonderful.
One other slight change- I had no pomegranate so I used dried cranberries and pecans to top it. This is in my file of regularly used recipes from now on! Thank you. 🙂
Brittany says:
Hi,
What size pan do you use for this?
Thanks!
Christine McMichael replied:
This is a 9×13 baking pan!
Emily Kemp says:
This breakfast bake looks to die for, I love the mix of flavours!
Sasha @ Eat Love Eat says:
This looks seriously delicious, Christine! So creative! I love your photography – I’ve seen lots of your recipes on Pinterest lately and they always catch my attention. Nice work! 🙂 x
Christine McMichael replied:
Thank you, Sasha!:) That means so much!
Kathryn @ FoodieGirlChicago says:
I’ve been really into butternut squash lately so think I need to try this – it looks delicious!
Christine McMichael replied:
Me too, it’s the best! 🙂 Thank you, Kathryn!
Amanda says:
This sounds wonderful. Love the idea of using quinoa for protein. A great power packed breakfast!
Christine McMichael replied:
Thank you, Amanda!
Elaine @ Dishes Delish says:
Oh my word, this looks delicious! Thanks for sharing!
Christine McMichael replied:
Thank you, Elaine! 🙂
Regina says:
Great healthy easy delicious recipes
Christine McMichael replied:
Thank you, Regina! 🙂