Easy Baked Spaghetti Squash and Cheese

spaghetti squash

There’s something absolutely magical about the way a warm, roasted spaghetti squash smells drifting through the kitchen. I remember the first time I roasted one, curious and a little skeptical—would this weirdly named, golden veggie really taste like spaghetti? Turns out, it’s a delightful little miracle. This recipe turned into a staple in my house because it’s not only cozy and full of flavor but also fun to make. It’s like inviting a bit of Italian flair without the carbs and without needing to boil pasta. My kids surprisingly think it’s a fun twist on their usual dinners and even beg for seconds. If you’ve ever loved pasta but wished for something lighter and packed with more nutrients, this spaghetti squash recipe will feel like a warm hug after a long day. Plus, it’s crazy simple. Trust me, once you try it, you’ll want to make it every week.

What is spaghetti squash?

So, here’s the scoop on spaghetti squash—it’s essentially a type of winter squash that, when cooked, breaks apart naturally into strands that look like, well, spaghetti! The name is pretty literal but don’t let it fool you; it’s far from just a quirky veggie. Think of it as nature’s low-carb noodle substitute that brings its own mild, slightly sweet flavor to the table. Cooking it is like this little culinary magic trick: once it’s roasted just right, you simply scrape with a fork, and voila—you’ve got strands that twirl and soak up sauce so beautifully. In my kitchen, it’s become the go-to when I want pasta vibes without the wheat or heavy sauces. It’s versatile, approachable, and honestly kind of fun to serve—you’ll catch your family buzzing about how cool it looks on their plates.

Why you’ll love this recipe?

What I love most about this spaghetti squash recipe is how it hits that perfect balance between comforting and light. The flavor is subtly sweet, almost nutty, with a texture that’s just right—not mushy, but tender enough to melt in your mouth. This recipe captures that essence beautifully, layering the squash with a homemade tomato-basil sauce that’s fragrant and fresh, neither overwhelming nor too plain. And the simplicity? It’s a lifesaver on busy weeknights when you want dinner on the table fast without compromising on taste or nutrition.

Another big plus is how budget-friendly it is. Spaghetti squash and pantry basics like canned tomatoes and garlic keep costs down, but exciting things like fresh herbs or a sprinkle of cheese take it up a notch. The versatility has me hooked too—sometimes I whip it up with a hint of heat from crushed red pepper, other times I toss in mushrooms or spinach for a veggie boost. It’s my “clean out the fridge” hero.

If you’re a fan of classic pasta dishes but want to shake it up, this recipe is a fresh take that doesn’t try too hard. It’s not about mimicking spaghetti exactly; it’s about celebrating the squash’s unique charm while hitting those familiar, comforting notes we crave. Honestly, my whole family asks for this more often than our traditional pasta, and I’m happy to oblige every time!

How do you make spaghetti squash?

Quick Overview

This recipe’s magic lies in its simplicity. You start by roasting the spaghetti squash till it’s tender and stringy, then scoop out those beautiful noodle-like strands. From there, it’s about layering the flavors—sautéing a quick sauce, combining it all, and popping it back in the oven for a bubbly finish. The process feels cozy and satisfying, perfect for those nights when you want something homey but fuss-free. I love that even beginners can nail this one because the steps are straightforward, yet the results are anything but boring.

Ingredients

For the Spaghetti Squash:

  • 1 medium spaghetti squash (about 3-4 pounds) – look for one that’s firm and evenly yellow-orange.
  • 2 tablespoons olive oil – go for extra virgin for the best flavor.
  • Salt and freshly ground black pepper – to taste.

For the Sauce:

  • 1 tablespoon olive oil
  • 3 cloves garlic, minced – fresh is key here; it gives that lovely punch.
  • 1 can (14 oz) crushed tomatoes – quality matters; San Marzano if you can find it.
  • 1 teaspoon dried oregano
  • 1 teaspoon dried basil or a handful of fresh basil leaves, chopped
  • Salt and pepper to taste
  • Pinch of red pepper flakes (optional) – for a gentle warmth

For Serving:

  • Grated Parmesan or Pecorino Romano cheese
  • Fresh basil leaves for garnish
  • Optional: A drizzle of balsamic glaze or a squeeze of lemon for brightness

Step-by-Step Instructions

Step 1: Preheat & Prep Pan

First, set your oven to 400°F (200°C). I always roast my spaghetti squash face down on a rimmed baking sheet to help it steam in its own moisture—this keeps the strands tender but not dry. Give your pan a quick swirl of olive oil or a light spray of cooking spray so it doesn’t stick. This little step saves you from fishing out burnt bits later!

Step 2: Roast the Spaghetti Squash

Slice the spaghetti squash in half lengthwise—this can be tough, so I always stab it a few times with a fork beforehand to soften the shell. Scoop out the seeds and stringy bits with a spoon. Brush the insides with olive oil and sprinkle with salt and pepper. Pop the halves face down on the baking sheet, and roast for about 40-45 minutes, or until you can easily pierce the flesh with a fork and it pulls away in long strands.

Step 3: Prepare the Sauce

While the squash roasts, heat olive oil in a skillet over medium heat. Toss in the garlic and sauté until fragrant, about 30 seconds to a minute—don’t let it brown! Stir in the crushed tomatoes, oregano, and basil. Let it simmer gently while the squash finishes roasting. Taste and season with salt, pepper, and red pepper flakes if you want a little kick.

Step 4: Scrape the Squash

Once roasted, use a fork to gently scrape the flesh into spaghetti-like strands. It’s so satisfying to see those golden threads come out—you’ll get a nice mix of thicker and thinner strands, which is part of the charm. Transfer the strands to a large mixing bowl.

Step 5: Combine Squash and Sauce

Pour half of your warm tomato sauce over the squash and gently toss to coat all strands without breaking them up too much. This helps the flavors meld without turning your “pasta” into mush. Taste and adjust seasoning as needed.

Step 6: Bake for a Crispy Finish

Transfer the sauced spaghetti squash to a baking dish, smoothing it out evenly. Spoon the remaining sauce on top, and sprinkle generously with Parmesan or Pecorino. Pop it into the oven for about 15 minutes until the cheese is golden and bubbly. This step is what really makes it feel special—true comfort food vibes.

Step 7: Garnish & Serve

Let it cool for a few minutes before serving—it’ll hold together better. Finish with fresh basil leaves and, if you’re feeling fancy, a drizzle of balsamic glaze or a spritz of lemon juice to brighten the flavors. This dish looks beautiful in rustic bowls, and be prepared—it disappears in minutes around here!

What to Serve It With

For Breakfast: If you want to get creative, try this dish topped with a poached egg or a dollop of ricotta. Pair it with a fresh cup of coffee or an herby green tea. The subtle sweetness of the squash and the tangy tomato make a surprising but delightful morning bite.

For Brunch: Serve it alongside a crisp arugula salad dressed in lemon vinaigrette and maybe some crispy pancetta or sausage on the side. A glass of sparkling water with fresh lemon or a light white wine complements the meal beautifully without overpowering it.

As Dinner: This stands beautifully as a main dish especially when jazzed up with extra roasted veggies or grilled chicken on the side. A warm garlic bread or a crusty baguette makes perfect sense here to soak up those tasty tomato juices.

For Cozy Snacks: Leftovers warm up wonderfully. I love scooping a bowl and pairing it with a crackling fireplace and a cold glass of kombucha. It’s the kind of snack that feels indulgent but not guilty—a warm hug from the inside out.

This recipe has become a tradition in my family, especially in fall and winter. It’s a way we sneak in veggies but still feel like we’re indulging in something special. Everyone’s tried adding their own twist, and I’m always game to swap tips!

Top Tips for Perfecting Your Spaghetti Squash

Spaghetti Squash Prep: Picking a good squash is key—look for one heavy for its size with a bright, firm shell. I learned the hard way that cutting it cold makes slicing tricky, so stabbing a few holes or microwaving for a minute helps soften it without steaming too much.

Roasting Technique: Face down roasting traps moisture, keeping strands tender. Don’t overcook, or you’ll end up with mushy noodles. The fork should slide in easily but the strands need to stay distinct, not soggy.

Mixing Gently: When you mix squash with sauce, fold gently. This prevents the squash from breaking up too much and keeps the texture just like spaghetti. Think of it like folding in whipped cream—light and careful.

Swirl Customization: If you’re feeling fancy, swirl a little pesto or a dollop of ricotta between layers before baking. Not only does it add gorgeous color, but it also amps up the flavor layers.

Ingredient Swaps: Don’t have basil? Thyme or rosemary work surprisingly well. For cheese, I’ve swapped Parmesan for mozzarella for a creamier top, though it gets a bit stringier. If you want vegan, a sprinkle of nutritional yeast adds umami without the dairy.

Baking Tips: The final bake should be golden, not burnt—keep an eye on your oven’s quirks. Middle rack works best for even cooking. If your oven runs hot, reduce temperature a touch and extend baking time rather than risk burning.

Glaze and Garnishes: A drizzle of balsamic glaze is my secret weapon—sweet, tangy, and it perfectly balances the subtle sweetness of the squash. Sometimes I finish with toasted pine nuts or a squeeze of fresh lemon for brightness. Play around to find what clicks for your palate.

One thing I learned: don’t rush the resting time right out of the oven. It’s tempting to dig in hot, but letting it cool slightly gives the flavors a chance to come together and makes cutting easier. My kids have learned patience from that lesson, begrudgingly—but now they know it’s totally worth it.

Storing and Reheating Tips

Room Temperature: You can leave covered leftovers out for a couple of hours if you’re enjoying it soon. Just cover with foil or a bowl to keep it fresh and prevent drying.

Refrigerator Storage: Store leftovers in an airtight container for up to 4 days. The squash tends to soak up juices, so when reheating, add a splash of water or broth to keep it moist. Microwave or oven reheat both work great—just avoid overheating to keep that perfect texture.

Freezer Instructions: I don’t typically freeze this dish because the texture changes a bit, but if you want to, freeze in a tight container for up to 2 months. Thaw overnight in the fridge before gently reheating. Adding a little fresh sauce or topping fresh cheese afterward brings back some magic.

Glaze Timing Advice: For best texture, I recommend adding any balsamic glaze or fresh herbs after reheating. If the glaze bakes on during storage, it can become sticky or lose brightness. Adding fresh toppings keeps it vibrant and delicious.

Frequently Asked Questions

Can I make this gluten-free?
Absolutely! The beauty of spaghetti squash is that it’s naturally gluten-free. Just make sure any added sauces or toppings, like breadcrumbs or cheese, are gluten-free as well. If you want to thicken the sauce, use gluten-free flour or cornstarch as a slurry instead of regular flour. The texture and taste stay beautifully intact.
Do I need to peel the zucchini?
This recipe uses spaghetti squash, so no zucchini peeling necessary here! But if you’re adding zucchini as a veggie boost, peeling is optional. The skin is edible and adds color and nutrients. If you prefer a softer texture or a neater appearance, peeling works well—but leaving it on keeps more fiber and gives a bit more bite.
Can I make this as muffins instead?
If you’re craving a to-go version, you can absolutely bake the sauced spaghetti squash mixture in muffin tins. Reduce baking time to about 20-25 minutes at 375°F, and line your tins well. These are fantastic for meal prep or quick lunches, just let them cool a bit before popping out to keep their shape.
How can I adjust the sweetness level?
Spaghetti squash is naturally mild with a hint of sweetness from roasting. If you want to dial it back, add a touch of acid like lemon juice or vinegar to the sauce to brighten flavors and balance sweetness. If you like it sweeter, a pinch of sugar or a splash of honey in your sauce works wonders. Play around until it feels just right for your taste buds!
What can I use instead of the glaze?
No balsamic glaze? No problem! A sprinkle of fresh grated Parmesan with a touch of olive oil or a squeeze of fresh lemon juice adds brightness. You can also dust with smoked paprika or chili flakes for a flavor kick. For a creamier finish, dollops of ricotta or a drizzle of tahini make delicious alternatives.

Final Thoughts

This spaghetti squash recipe is one of those rare finds that combine simplicity with soul. It feels like a hug from the inside out, comforting but light enough to make you feel good about what you’re eating. I’ve lost count of how many times this showed up on my family’s table during busy weeks or when I needed a meal that felt special but not complicated. It’s the kind of dish that makes you smile while cooking because you know it’s going to be a hit, no matter who you serve it to. If you love this one, definitely try swapping in other sauces or tossing in your favorite roasted veggies. I can’t wait to hear how yours turns out—drop me a note below, share your twists, or just say hi. Happy cooking and even happier eating!

baked spaghetti squash and cheese

This easy, cheesy baked spaghetti squash is a healthier take on mac and cheese. Cheesy, loaded with spinach, and perfect for a comforting meal without the guilt.
Prep Time 10 minutes
Cook Time 1 hour 35 minutes
Total Time 1 hour 45 minutes
Course Breakfast
Cuisine American
Servings 7
Calories 120 kcal

Ingredients
  

Main Ingredients

  • 5.5 cups cooked spaghetti squash from about 2 small squash
  • 1 tbsp butter
  • 1 tbsp olive oil
  • 0.25 cup minced onion
  • 0.25 cup all-purpose flour use gluten-free flour for GF
  • 2 cups skim milk
  • 1 cup fat free chicken broth vegetable broth for vegetarian
  • 2 cups 2% reduced fat mild cheddar cheese about 8 oz
  • 4 cups baby spinach about 4 oz
  • 0.125 cup grated parmesan cheese
  • to taste salt and pepper

Instructions
 

Preparation Steps

  • Preheat the oven to 375ºF.
  • Cut the squash in half lengthwise; remove and discard seeds. Place squash on a baking sheet cut side down. Bake until tender, about 1 hour.
  • Separate the strands of squash with a fork and place in a medium bowl; discard shells. Squeeze out any excess liquid from the squash if watery.
  • Maintain the oven temperature at 375ºF.
  • Heat butter and olive oil in a large saucepan over medium heat. Add onions and cook about 2 minutes until translucent.
  • Stir in flour. Reduce heat to low and cook, stirring continually, for 3 to 4 minutes.
  • Add milk and chicken broth and continue whisking, raising heat to medium-high until it comes to a boil and thickens, about 2 minutes. Season with salt and pepper.
  • Once thickened, remove from heat, add cheddar cheese and mix well until cheese is melted.
  • Adjust seasoning to taste, add cooked spaghetti squash and baby spinach. Pour mixture into a baking dish and sprinkle parmesan cheese on top.
  • Bake until bubbly and golden, 25 to 30 minutes.

Notes

This dish is perfect for Meatless Mondays or any day you want a comforting, cheesy meal without the guilt. Feel free to add cooked chicken or turkey bacon for extra protein.

Nutrition

Serving: 200gCalories: 120kcalCarbohydrates: 120gProtein: 120gFat: 120gSaturated Fat: 120gPolyunsaturated Fat: 120gMonounsaturated Fat: 120gTrans Fat: 120gCholesterol: 120mgSodium: 120mgPotassium: 120mgFiber: 120gSugar: 120gVitamin A: 120IUVitamin C: 120mgCalcium: 120mgIron: 120mg
Tried this recipe?Let us know how it was!

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