Butternut Squash Mac and Cheese

Featured in: Hearty and Delicious Meals

Enjoy ultimate comfort with butternut squash blended into a creamy cheese sauce for classic macaroni. Roasted squash and shallots combine with cheddar, Gruyere, and pecorino, adding sweetness and depth. The sauce coats tender pasta shells before baking under a broiler, finished with a crispy panko crust for delightful contrast. This satisfying dish balances savory flavors and velvety texture, making it perfect for cozy dinners any time of year.

Tags: #halal #vegetarian #north-american #baked #medium #over-30-minutes #dinner #thanksgiving

A woman is sitting at a table with a plate of food in front of her. The plate contains a dessert with berries on top.
Updated on Fri, 31 Oct 2025 15:31:48 GMT
A bowl of Butternut Squash Mac and Cheese with a side of bread. Pin it
A bowl of Butternut Squash Mac and Cheese with a side of bread. | recipebyme.com

Butternut squash mac and cheese is my top choice when I want a twist on the classic comfort dish that feels wholesome yet extra creamy. The natural sweetness of roasted squash blends seamlessly with gooey cheese for a crowd-pleaser I make every fall holiday and winter dinner gathering.

Every time I serve this for friends or family they are always surprised by how the butternut squash makes the sauce taste richer and lighter at the same time. My husband asks for it every Thanksgiving rather than traditional mac.

Ingredients

  • Butternut squash: Brings subtle sweetness and velvety body to the sauce. Look for a large squash that feels heavy for its size and has minimal blemishes.
  • Shallots: Deliver delicate onion flavor. Choose plump ones for the best result.
  • Shell pasta or elbows: Prime for capturing creamy sauce in every bite. Whole wheat pasta works too.
  • Extra-virgin olive oil: Deepens flavor and adds silkiness. A high-quality oil makes a big difference.
  • Balsamic vinegar: Adds brightness and lifts the flavors. A syrupy aged version is best if you have it.
  • Sea salt and freshly ground black pepper: Balance sweetness and round out flavors.
  • Onion powder and garlic powder: Intensify the allium notes for coziness.
  • Ground sage and nutmeg: Add classic savory and just a hint of warmth.
  • Unsweetened almond milk: Makes the sauce creamy and keeps it lighter. Look for a brand with a clean ingredient list.
  • Sharp cheddar cheese: Delivers tanginess that stands out. Opt for blocks you can grate yourself.
  • Gruyere cheese: Melts beautifully and adds nutty undertones. Choose aged for extra depth.
  • Pecorino cheese: Gives a salty finish. Use a microplane for fine shavings.
  • Panko breadcrumbs: Provide the crunchy golden topping. Japanese-style panko bakes up extra crisp.

Instructions

Prep the Vegetables:
Preheat your oven to 425 F and line a baking sheet with parchment paper. Cut the butternut squash in half lengthwise and scoop out the seeds. Drizzle the inside with olive oil and season generously with salt and pepper. Place the halves face down on your prepared baking sheet. For the shallots place them on a piece of foil drizzle with olive oil sprinkle with salt wrap well and place on the same tray.
Roast the Squash and Shallots:
Roast everything for 30 to 45 minutes. You want the squash totally tender when pierced with a fork and slightly caramelized at the edges. The shallots should be soft and sweet smelling.
Make the Crunchy Topping:
In a small mixing bowl combine panko and olive oil with your hands until every breadcrumb glistens and looks lightly moist. Set aside.
Cook the Pasta:
Fill a big pot with salted water and bring to a boil. Add in your pasta and cook according to package directions until al dente. Before you drain it carefully reserve one and a half cups of the starchy cooking water. This is essential for a silky emulsion later.
Blend the Creamy Sauce:
Scoop out exactly two cups of soft squash flesh and place in a blender. Add the roasted shallots olive oil balsamic vinegar salt onion powder garlic powder sage nutmeg and a few grinds of fresh black pepper. Pour in the reserved pasta water. Blend on high until the mixture becomes completely smooth and thick.
Heat the Cheese Sauce:
Move your rinsed pasta pot back to medium heat. Pour in the almond milk and gently warm it do not boil. Add the pureed squash mixture and cook for about three minutes whisking frequently. Now add handfuls of grated cheddar Gruyere and pecorino whisking between each addition. Only add the next when the last one has melted completely. When all the cheese is in and the sauce feels rich silky and stretchy add your cooked pasta. Stir well until every piece is coated.
Bake and Broil:
Spoon everything into your greased nine by thirteen inch baking dish. Sprinkle on the panko topping in an even layer. Place under the broiler for five to ten minutes but do not walk away. Remove when the breadcrumbs are golden and crisp and the edges of the pasta bubble gently.
Rest and Serve:
Allow the dish to cool for fifteen minutes before serving so the sauce sets to the perfect creaminess and your slices hold their shape.
A delicious macaroni and cheese dish with a generous amount of cheese and seasonings.
A delicious macaroni and cheese dish with a generous amount of cheese and seasonings. | recipebyme.com

Cheddar is my favorite cheese for this dish because of its sharp bite and melt but one of my happiest kitchen moments was when my niece asked for seconds after refusing squash all year.

Storage Tips

Keep leftovers in a tight-lidded container in the fridge for up to four days. Reheat slowly in the oven or microwave adding a splash of milk to restore creaminess and keep the sauce from getting thick or dry. For freezing I spread individual portions in a single layer to cool then wrap them well.

Ingredient Substitutions

Feel free to swap other winter squash like kabocha or pumpkin for the butternut when in season. Use regular milk if you do not prefer almond or swap Gruyere for fontina mozzarella or even Monterey Jack. Gluten free pasta and gluten free breadcrumbs work well for dietary needs.

Serving Suggestions

Pair this with a sharp green salad and fresh lemony vinaigrette to balance the richness. Roasted broccoli or Brussels sprouts on the side are also a hit on chilly nights. Leftovers make an epic next day lunch that travels well.

Cultural and Historical Context

Mac and cheese is a longtime comfort food on American tables but the addition of pureed vegetable is a Southern and soul food kitchen trick for creamy sauce without extra butter or cream. The sweet savory squash idea actually dates back to old English and Colonial recipes.

Seasonal Adaptations

Swap in roasted pumpkin or acorn squash in autumn. Add sautéed mushrooms or kale for a wintry green twist. Top with toasted walnuts or pecans for a festive crunch.

Success Stories

Friends with kids thank me for a healthy spin their children cannot detect. Even picky eaters love the creamy texture and rich color. My own daughter once asked which store I bought it from because it tasted like a gourmet treat.

Freezer Meal Conversion

Bake the finished mac completely and let it cool. Wrap the entire casserole tightly in foil and plastic then freeze for up to two months. Thaw overnight and reheat covered with foil at 350 F until bubbling and hot.

A delicious macaroni and cheese dish with a generous amount of cheese and seasonings.
A delicious macaroni and cheese dish with a generous amount of cheese and seasonings. | recipebyme.com

Butternut squash mac and cheese is as cozy as fall gets on a plate. You will love how this dish can win over even the pickiest eaters and keep well for any occasion.

Recipe FAQs

→ How does butternut squash enhance the dish?

Butternut squash adds rich creaminess and a subtle sweetness, balancing the savory cheese flavors.

→ What kind of cheese works best?

Sharp cheddar, Gruyere, and pecorino create a complex, melty, and flavorful sauce for the pasta.

→ Is almond milk necessary or can I substitute?

Almond milk keeps the sauce light, but you can use any unsweetened milk for a similar texture.

→ What pasta shapes are recommended?

Shells, pipe rigate, or elbows are ideal as they hold the sauce in their crevices for every bite.

→ How do I achieve a crispy topping?

Tossing panko with olive oil and broiling ensures a golden, crispy finish on top of the pasta.

→ Can I prepare this dish ahead?

Yes, assemble and refrigerate, then broil the topping just before serving for best texture and flavor.

Butternut Squash Mac and Cheese

Rich butternut squash and cheese create a velvety sauce for pasta, topped with golden, crunchy panko.

Prep Time
30 min
Cook Time
45 min
Total Time
75 min
By: Sana

Category: Main Dishes

Skill Level: Medium

Cuisine: American

Yield: 8 Servings (One 9 by 13 inch casserole)

Dietary Categories: Vegetarian

Ingredients

→ Vegetables

01 1 large butternut squash
02 2 shallots, roughly chopped (about 2/3 cup)

→ Pasta

03 1 pound shell pasta, or substitute pipe rigate or elbows

→ Oils and Vinegar

04 1/4 cup extra-virgin olive oil, plus more for drizzling
05 2 teaspoons balsamic vinegar

→ Seasonings

06 1 1/2 teaspoons sea salt
07 1 teaspoon onion powder
08 1/2 teaspoon garlic powder
09 1/2 teaspoon ground sage
10 1/4 teaspoon ground nutmeg
11 Freshly ground black pepper, to taste

→ Dairy Alternatives

12 1 1/2 cups unsweetened almond milk

→ Cheeses

13 6 ounces sharp cheddar cheese, grated (about 2 1/2 cups)
14 6 ounces Gruyere cheese, grated (about 2 1/2 cups)
15 1 1/2 ounces pecorino cheese, finely grated (about 1/2 cup)

→ Topping

16 3/4 cup panko breadcrumbs
17 1 1/2 teaspoons extra-virgin olive oil

Steps

Step 01

Preheat the oven to 425°F. Line a baking sheet with parchment paper and lightly grease a 9 by 13 inch baking dish.

Step 02

Halve the butternut squash lengthwise and remove seeds. Drizzle cut sides with olive oil and season with salt and pepper. Place cut side down on prepared baking sheet. Place chopped shallots on a piece of foil, drizzle with olive oil and sprinkle with salt, then wrap tightly and place on the baking sheet. Roast for 30 to 45 minutes, until squash is soft.

Step 03

In a small bowl, combine panko breadcrumbs with 1 1/2 teaspoons olive oil, stirring to coat evenly.

Step 04

Bring a large pot of salted water to a boil. Cook the pasta according to the package instructions until al dente. Before draining, reserve 1 1/2 cups of the starchy pasta water.

Step 05

Scoop 2 cups of cooked squash flesh and transfer to a blender along with roasted shallots, 1 1/2 cups reserved pasta water, 1/4 cup olive oil, balsamic vinegar, 1 1/2 teaspoons salt, onion powder, garlic powder, ground sage, nutmeg, and several grinds of pepper. Blend until smooth and creamy.

Step 06

Return the pasta pot to the stove and heat almond milk over medium heat. Pour in the blended squash sauce and cook, stirring frequently, for 3 minutes until heated through. Gradually add the cheddar, Gruyere, and pecorino cheeses in portions, whisking thoroughly after each to ensure even melting. Once all cheese is melted and the sauce is smooth, add the cooked pasta and stir until completely coated.

Step 07

Preheat the oven broiler. Transfer pasta mixture to the prepared baking dish and sprinkle evenly with the prepared panko topping. Broil for 5 to 10 minutes, watching closely, until the topping is golden and crisp.

Step 08

Allow the dish to rest for 15 minutes before serving to set and enhance flavor.

Notes

  1. Reserve the pasta cooking water to create a creamy sauce texture.
  2. Roasting the squash intensifies its natural sweetness and adds depth to the sauce.

Required Equipment

  • 9 by 13 inch baking dish
  • Large pot
  • Baking sheet
  • Blender
  • Aluminum foil

Allergen Information

Check each ingredient for potential allergens and consult a healthcare professional if needed.
  • Contains milk and dairy ingredients
  • Contains wheat (gluten from pasta and panko breadcrumbs)
  • May contain tree nuts (almond milk)

Nutritional Info (per serving)

This data is provided as a guide and doesn't replace medical advice.
  • Calories: 410
  • Fats: 15 g
  • Carbohydrates: 54 g
  • Proteins: 16 g