As I savored the crisp autumn air, the warm aromas of a cozy kitchen brought back memories of family gatherings centered around hearty comfort food. One dish that consistently makes an appearance is my creamy Butternut Squash Mac and Cheese. This delightful twist on the classic combines the rich, cheesy goodness we all adore with the sweet and nutty flavors of roasted butternut squash. What’s more, it’s a vegetarian delight that not only celebrates fall but also packs in some serious nutrition while being irresistibly creamy. With its quick prep time and scrumptious crispy breadcrumb topping, this dish is sure to become a favorite at your table. Ready to make cozy memories in the kitchen? Let’s dive into the recipe!

Why is this Mac and Cheese special?
Comforting and fulfilling, this Butternut Squash Mac and Cheese redefines your notion of cozy food. Rich flavors blend beautifully with the sweetness of roasted squash, creating a dish that’s both familiar and exciting. Quick to prepare, it fits seamlessly into busy lifestyles while allowing you to enjoy homemade goodness. Nutritious twist on a classic, it ensures everyone can enjoy a hearty meal without sacrificing health. Crowd-pleaser, this dish is perfect for gatherings or simple family dinners, making it a staple for any fall or winter occasion. Try it alongside a refreshing salad or even paired with a slice of Honey Banana Grilled Cheese for a delightful contrast!
Butternut Squash Mac and Cheese Ingredients
This recipe for Butternut Squash Mac and Cheese highlights the seasonal flavors while delivering nutrition.
For the Roasted Squash
- Extra Virgin Olive Oil – Adds richness and helps roast the squash; vegetable oil can substitute.
- Butternut Squash (1.5 lbs) – Provides sweetness and creamy texture; fresh roasted squash is preferred over canned for optimal flavor.
For the Cheese Sauce
- Whole Milk (2.5 cups) – Creates a smooth, creamy cheese sauce; use almond or oat milk for a dairy-free option.
- Unsalted Butter (4 tablespoons) – Adds flavor to the sauce; margarine or a dairy alternative can be used.
- Shallot (1 small) – Offers a mild onion flavor; substitute with onion or leeks if unavailable.
- Garlic (2 cloves) – Enhances depth of flavor; fresh garlic is recommended for brightness.
- Smoked Paprika (1/2 teaspoon) – Adds a subtle smokiness; regular paprika may substitute but will lack the smoky flavor.
- All-Purpose Flour (2 tablespoons) – Acts as a thickening agent for the cheese sauce; gluten-free flour can be used as a substitute.
- White Cheddar Cheese (2 cups) – Provides a sharp, cheesy flavor; consider mixing with Fontina, Gruyère, or Parmesan for variety.
- Fresh Thyme (1 tablespoon) – Introduces an herbal note; dried thyme (1.5 teaspoons) works as a substitute.
- Salt and Pepper – Season to taste.
For the Pasta and Topping
- Short Cut Pasta (8 ounces) – Acts as the base for the dish; choose elbow macaroni, shells, or cavatappi for best sauce adhesion.
- Panko Breadcrumbs (1/2 cup) – Creates a crispy topping; any preferred breadcrumbs can be used.
This comforting Butternut Squash Mac and Cheese is not just a recipe; it’s a warm hug on a plate!
Step‑by‑Step Instructions for Butternut Squash Mac and Cheese
Step 1: Roast the Squash
Preheat your oven to 400°F (200°C). Carefully cut the butternut squash in half and scoop out the seeds. Brush the cut surfaces with extra virgin olive oil and place them cut-side down on a baking sheet. Roast for 30-40 minutes until the squash is tender and easily pierced with a fork, releasing a sweet aroma that fills the kitchen.
Step 2: Prepare Squash Purée
Once the roasted squash has cooled slightly, scoop out the flesh into a blender. Add ½ cup of whole milk and blend until completely smooth, creating a velvety squash purée. Set this aside for later use in your creamy Butternut Squash Mac and Cheese or store in the refrigerator if preparing in advance.
Step 3: Cook Pasta
In a large pot, bring water to a rolling boil. Add in your choice of short cut pasta, like elbow macaroni or shells, and cook according to package instructions until just under al dente. This usually takes around 6-8 minutes; remember, the pasta will cook further in the oven. Drain and set aside.
Step 4: Make Cheese Sauce
In a large saucepan, melt 4 tablespoons of unsalted butter over medium heat. Sauté one small shallot until it becomes translucent, about 2-3 minutes, then add minced garlic and smoked paprika. Cook for an additional minute before sprinkling in 2 tablespoons of flour to create a roux, stirring constantly until it turns golden. Gradually whisk in the remaining 2 cups of milk until thickened, about 5 minutes.
Step 5: Combine the Mixture
Stir in the roasted butternut squash purée, followed by 2 cups of white cheddar cheese, fresh thyme, and season with salt and pepper to taste. Mix until the cheese is melted and the sauce is creamy. Now, gently fold in the cooked pasta, ensuring each piece is coated in this luscious sauce.
Step 6: Assemble and Bake
Preheat your oven to 350°F (175°C). Transfer the pasta mixture into a greased baking dish, spreading it evenly. Sprinkle the remaining cheese on top followed by ½ cup of panko breadcrumbs mixed with a little melted butter for extra crunch. Bake for 20-30 minutes, until the top is golden brown and the sauce is bubbly, creating a delightful contrast in textures.

What to Serve with Butternut Squash Mac and Cheese
As the warm, cheesy aroma envelops your kitchen, it’s time to elevate your meal with delightful pairings that harmonize beautifully with this comforting dish.
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Fresh Green Salad: A crisp, green salad with a tangy vinaigrette adds a refreshing contrast to the creamy richness of the mac and cheese. The bright flavors will balance the dish wonderfully.
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Garlic Bread: This quintessential companion offers a crunchy texture and aromatic flavors that complement the cheese sauce, making for a perfect side as you scoop up cheesy goodness.
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Roasted Brussels Sprouts: The nutty flavor of roasted Brussels sprouts, lightly seasoned, enhances the sweetness of butternut squash and brings a delightful, earthy element to your plate.
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Apple Cider: Sipping on a refreshing glass of apple cider, whether hot or cold, enhances the autumn vibes while the sweet and tangy notes pair beautifully with the savory mac and cheese.
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Herbed Quinoa: A side of fluffy quinoa seasoned with fresh herbs adds a nutritious twist and nutty flavor that contrasts nicely with the creamy texture of the dish.
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Pumpkin Spice Muffins: For a sweet finish, serve warm pumpkin spice muffins that reflect the season and provide a cozy end to your meal, making it entirely memorable.
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Steamed Broccoli: Simple and nutritious, steamed broccoli adds a touch of green to your plate, providing a slight crunch and balancing the richness of the Butternut Squash Mac and Cheese.
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Cheese Platter: Offering a selection of cheeses, crackers, and fruits allows for a fun, shareable appetizer that can enhance the cheese experience alongside the pasta dish.
How to Store and Freeze Butternut Squash Mac and Cheese
Fridge: Store leftover Butternut Squash Mac and Cheese in an airtight container for up to 3 days. Reheat on the stovetop or in the microwave, adding a splash of milk for creaminess.
Freezer: You can freeze this dish for up to 2 months. Portion it into freezer-safe containers and let it cool completely before sealing.
Reheating: To reheat from frozen, bake at 350°F (175°C) for about 45 minutes, or until heated through. Cover with foil to prevent browning too fast.
Thawing: When ready to enjoy, transfer the frozen mac and cheese to the fridge to thaw overnight before reheating.
Butternut Squash Mac and Cheese Variations
Feel free to get creative with your Butternut Squash Mac and Cheese—there are so many delightful twists you can explore!
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Pumpkin Puree: Swap in pureed pumpkin for a seasonal twist, enhancing sweetness while keeping the creamy texture.
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Greens Galore: Add sautéed spinach or kale for a nutritious boost that brings vibrant color and extra flavor to the dish.
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Whole Wheat Pasta: Choose whole wheat pasta for a heartier texture and added fiber, making this comfort food even more nutritious.
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Cheddar Alternatives: Mix in Fontina or Gruyère for a unique flavor profile. These cheeses melt beautifully, adding richness to your creamy sauce.
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Spicy Kick: For some heat, sprinkle in a bit of cayenne pepper. It adds a warming spice that pairs perfectly with the sweetness of the squash.
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Nutty Crunch: Toss in some toasted walnuts or pecans in addition to or instead of the breadcrumbs for an enjoyable crunch and nutty flavor.
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Cream Cheese Addition: Stir in a dollop of cream cheese as the sauce thickens for extra creaminess that enhances the velvety texture.
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Herbal Infusion: Experiment by replacing thyme with fresh basil or rosemary for an aromatic twist, which complements the dish beautifully.
With these variations, you’re sure to create a personalized version of Butternut Squash Mac and Cheese that will warm hearts during cozy nights. And if you’re curious for more cheesy goodness, you might want to check out this delicious Chicken Grilled Cheese or the sweet notes of a Strawberry Cheesecake Dump Cake. Enjoy your kitchen adventures!
Make Ahead Options
These Butternut Squash Mac and Cheese are perfect for busy weeknights! You can prepare the roasted butternut squash purée up to 3 days in advance, storing it in an airtight container in the refrigerator to maintain its creamy texture. Additionally, cook and cool the pasta, keeping it refrigerated for up to 24 hours. When you’re ready to serve, simply warm the squash purée and mix it with the cheese sauce and pasta. Finish by assembling and baking as directed—your comforting dish will be just as delicious and ready with minimal effort! This time-saving approach allows you to enjoy homemade goodness without the last-minute rush.
Expert Tips for Butternut Squash Mac and Cheese
- Fresh Purée: Always use homemade butternut squash purée for the best flavor—canned options often lack depth and sweetness.
- Grate Your Cheese: Grate cheese from a block rather than using pre-grated to ensure a creamier melt in your Butternut Squash Mac and Cheese.
- Pasta Perfection: Avoid overcooking the pasta; you want it al dente since it continues to cook in the oven, maintaining the ideal texture.
- Check for Doneness: Look for a golden-brown top and bubbly sauce when baking—cover it with foil if it browns too quickly to prevent burning.
- Adjust for Taste: Experiment with spices or herbs—add a pinch of nutmeg or a sprinkle of cayenne for an extra flavor kick in your creamy dish!

Butternut Squash Mac and Cheese Recipe FAQs
How do I choose the right butternut squash?
Absolutely! For the best flavor, look for a butternut squash that feels heavy for its size and has a smooth, even skin without deep cuts or dark spots all over. Smaller squash tend to be sweeter and less fibrous, so go for those if you can!
How should leftovers be stored?
Very easily! Leftover Butternut Squash Mac and Cheese can be stored in an airtight container in the refrigerator for up to 3 days. When reheating, just add a splash of milk to restore its creamy consistency while warming it up on the stovetop or in the microwave.
Can I freeze Butternut Squash Mac and Cheese?
Of course! To freeze, portion the dish into freezer-safe containers and let it cool completely. It can be safely frozen for up to 2 months. When you’re ready to eat, simply transfer it to the fridge the night before to thaw. When reheating from frozen, bake at 350°F (175°C) for about 45 minutes, covering it with foil to prevent it from browning too quickly.
What if my cheese sauce is too thick?
No worries! If you find your cheese sauce has thickened too much, simply whisk in a little more milk, a tablespoon at a time, until you reach the desired consistency. This way, your Butternut Squash Mac and Cheese will remain rich and creamy!
Is this dish safe for people with dairy allergies?
Great question! This recipe is not suitable for those with dairy allergies unless you make some adjustments. Substitute the whole milk with almond or oat milk, use dairy-free cheese alternatives, and switch butter with a plant-based option. This will keep the flavors while making it more allergy-friendly!
Can I use a different type of pasta?
Absolutely! Feel free to swap out the short cut pasta for any pasta shape you prefer, such as whole wheat or gluten-free options. Just be mindful of the cooking instructions, ensuring it’s al dente before combining it with the cheese sauce for the best texture.

Creamy Butternut Squash Mac and Cheese for Cozy Nights
Ingredients
Equipment
Method
- Preheat your oven to 400°F (200°C). Cut the butternut squash in half, scoop out the seeds, brush with olive oil, and roast for 30-40 minutes until tender.
- Scoop out the flesh of the roasted squash into a blender, add ½ cup of milk, and blend until smooth. Set aside.
- In a large pot, bring water to a boil, add pasta, and cook until just under al dente, about 6-8 minutes. Drain and set aside.
- In a large saucepan, melt 4 tablespoons of butter over medium heat. Sauté shallot until translucent, add garlic and paprika, then cook for another minute. Stir in flour to create a roux.
- Gradually whisk in remaining milk until thickened, about 5 minutes. Stir in the squash purée, cheddar cheese, thyme, and season with salt and pepper. Fold in the cooked pasta.
- Preheat your oven to 350°F (175°C). Transfer the mixture to a greased baking dish, sprinkle remaining cheese and panko breadcrumbs, and bake for 20-30 minutes until golden brown.
