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Home » Recipes » Dinner

Spaghetti Squash Pizza Boats

Published: Mar 27, 2017 · Modified: Mar 6, 2025 by Megan

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Low carb, filling and absolutely delicious, these Spaghetti Squash Pizza Boats are the perfect healthier alternative for any pizza lover! This recipe is the perfect way to enjoy that taste of pizza, but without all the carbs and calories. Made with good-for-you ingredients and naturally gluten-free, these spaghetti boats are going to become a family favorite for sure! 

Two spaghetti squash pizza boats on a piece of parchment with a fork resting on one with a bite on it.
Jump to:
  • Why You’ll Love This Recipe
  • Ingredients
  • Variations & Dietary Modifications
  • How to Make Spaghetti Squash Pizza
  • Storage Directions 
  • Serving Suggestions
  • Recipe Tips
  • More Delicious Low Carb Recipes
  • Spaghetti Squash Pizza Boats

I’ve recently been trying out a lot of low carb alternatives for classic high carb recipes. Dishes like my chicken lettuce wraps and this healthy lasagna skillet have been on repeat in my household.

Spaghetti squash makes a perfect low carb stand in for pasta. It works great with my turkey veggie meatballs and most other pasta recipes. It's safe to say, spaghetti squash has now become my new favorite ingredient to work with, and they are the star of the show in these pizza boats! 

Why You’ll Love This Recipe

  • Customizable: These pizza boats are super easy to customize. You can play around with the toppings, the sauces and the seasonings too.
  • Low carb: They are low in carbs and calories and rich in fiber, which makes them a great choice if you’re looking for a meal that supports your weight loss goals.
  • Healthy and delicious: If you’ve always loved pizza nights, this recipe is perfect to satisfy those cravings, but in a healthier way.

Ingredients

Ingredients to make pizza boats on the counter before preparing.
  • Spaghetti squash: I used a whole large spaghetti squash. You can use two small spaghetti squash too.
  • Chicken sausage: For that bit of protein. I sliced the sausage into thin quarter-inch slices. 
  • Marinara sauce: Any good pizza needs a solid, savory marinara sauce. You can use a store-bought, no-salt added version, or try my crockpot tomato sauce and season it yourself.
  • Veggies: I used some frozen veggies for convenience! These help bulk up the pizza. 
  • Seasonings: Salt, pepper, onion powder, basil, oregano, and garlic powder give the dish those classic pizza flavors and incredible aroma.
  • Cheese: Parmesan cheese works best! It’s best to use Parmesan shredded from a block, instead of using the pre-shredded version. 

See the recipe card below for exact ingredient amounts, nutritional information, and detailed instructions.

Variations & Dietary Modifications

  • Dairy-free: Swap the Parmesan cheese in the recipe for some nutritional yeast, dairy-free grated cheese, or just skip adding the cheese if you want to make the dish dairy-free. 
  • Vegan: To make vegan spaghetti squash pizza boats, skip adding the chicken sausage, and use only veggies. 
  • Toppings: Use your favorite pizza toppings! You can also experiment with ingredients such as grilled zucchini, olives, capers, and fresh basil to enjoy different flavor variations. Try some shredded chicken, seasoned with the seasonings of your choice instead of the chicken sausage if you want to. 

How to Make Spaghetti Squash Pizza

To make these easy pizza boats, start by preheating the oven to 400° F and placing parchment paper on a baking pan.

Spaghetti squash cut in half and seeds scooped out on a baking tray.

Step 1: Prep spaghetti squash: Place the spaghetti squash in the microwave for 5 minutes to soften, and then slice it lengthwise and remove the seeds. Then Place it on the baking sheet with the flesh facing up. Season it with salt and pepper, and then place flesh face down.

Tomato sauce in a bowl with seasonings added.

Step 2: Make the sauce: Combine the marinara sauce with the seasonings and herbs in a bowl and mix together.

Spaghetti squash on a baking tray with a fork in one after scraping the noodle free.

Step 3: Bake: Bake the spaghetti squash for about 40 minutes. Flip them over and let them rest for 5-10 minutes. Use a fork to scrape the flesh from the skin, keeping it in the spaghetti squash boat.

Pizza sauce added to the boats.

Step 4: Spread the sauce: Divide the sauce evenly between each squash half and spread it over the top, covering the flesh as much as you can. 

Toppings added on top of the pizza sauce.

Step 5: Arrange the toppings: Arrange the veggies and the sliced chicken sausage over the marinara sauce, and top with the shredded Parmesan cheese.

Cooked spaghetti squash pizza boats on a baking tray.

Step 6: Broil and serve: Pop the tray back in the oven and broil for 5 minutes until the cheese is melty. Remove and serve immediately.

Storage Directions 

  • Storing: Store the leftover loaded spaghetti squash in an airtight container and refrigerate it for up to 3 days.  
  • Reheating: You can reheat these in the microwave, pausing at every 15-second interval, or in a preheated 350° F oven for 10-15 minutes.
A spaghetti squash pizza served in the skin topped with vegetables and sausage.

Serving Suggestions

  • These pizza boats can be enjoyed on their own, or paired with a simple veggie side dish like roasted vegetables or caramelized cauliflower.
  • Enjoy with a healthy salad like this quinoa tabbouleh or some chickpea salad with cucumbers and tomatoes. Create your own salad combination and enjoy with this Greek yogurt ranch dressing.

Recipe Tips

  • Pat dry: If you’re using frozen veggies (like me) for the toppings, make sure you thaw them completely. Also pat them dry to remove the excess moisture before you use them here.
  • Using fresh veggies? You’ll need to saute them first before you adding them to your pizza boats as they won't cook in the oven.
  • Make it quick: To make it quicker, you can use pre-grilled veggies too! I love using Trader Joe's Misto Alla Griglia with eggplant, zucchini and red peppers.
  • Microwaving the squash: This trick works to soften the squash slightly making it easier to cut in half.
Two spaghetti squash pizza boats on a baking tray with a bowl of parmesan to the side.

More Delicious Low Carb Recipes

  • Healthy Air Fryer Mustard Salmon is a delicious mustard-glazed salmon recipe. Pair with a vegetable and another side for a simple nutrient dense meal. A naturally low calorie, gluten free meal made in 10 minutes.
    Healthy Air Fryer Mustard Salmon {Low Calorie, GF, Low Carb, Paleo}
  • Healthy Lemon Garlic Chicken is an easy, low calorie dinner recipe made in one pan. Super flavorful, filling and family approved! Gluten Free + Paleo + Low Carb + Low Calorie
    Healthy Lemon Garlic Chicken
  • Healthy Mexican Cauliflower Rice is a low calorie, low carb dish made in one skillet with just a few ingredients. A healthy side dish recipe you can add to a meal, soups, salads and more!
    Healthy Mexican Cauliflower Rice {Low Calorie, Low Carb, GF, Paleo, Vegan}
  • Healthy Crockpot Chipotle Chicken {GF, Low Carb, Low Cal}

If you tried this spaghetti squash pizza recipe or any other recipe on my website, please please leave a 🌟 star rating and let me know how you go in the 📝 comments below.

Spaghetti Squash Pizza! Customize with your favorite pizza toppings for an easy to make meal that's low carb, filling & delicious! Gluten Free + Low Calorie

Spaghetti Squash Pizza Boats

Megan Olson
These gluten-free and low carb spaghetti squash pizza boats are an absolute game changer. You’ll need just 10 minutes of prep time to put these together, and they’re perfect for all those days when you’re craving for your favorite pizza.
5 from 1 vote
Print Recipe Pin Recipe
Prep Time 10 minutes mins
Cook Time 45 minutes mins
Total Time 55 minutes mins
Course Dinner
Cuisine American
Servings 4 servings
Calories 418 kcal

Ingredients
 
 

  • 1 Spaghetti Squash
  • 1 lb Chicken Sausage sliced into thin quarter-inch slices
  • 16 ounces Frozen Vegetables thawed and patted dry
  • 1 ½ cups Marinara Sauce no-salt added
  • 1 teaspoon Garlic Powder
  • 1 teaspoon Onion Powder
  • 1 teaspoon Basil
  • 1 teaspoon Oregano
  • 3 tablespoons Parmasen
  • Salt and pepper to taste

Instructions
 

  • Preheat oven to 400 F. Prepare a large baking pan with parchment paper. Place spaghetti squash in the microwave 5 minutes to soften then slice lengthwise and remove seeds. Place spaghetti squash on a baking sheet flesh facing up, sprinkle with salt & pepper then place flesh face down. Bake 40 minutes.
  • Remove the spaghetti squash from the oven, flip it so the flesh is facing up and let it cool 5-10 minutes. Using a fork, scrape the flesh from the skin keeping it in the spaghetti squash boat.
  • In a mixing bowl, combine the marinara sauce with the seasonings. Divide the sauce evenly between each squash half and spread over the top covering the flesh.
  • Divide and place the vegetables and sliced chicken sausage evenly over each squash half. Sprinkle with Parmesan cheese evenly over each. Set under a broiler 5 minutes to warm the ingredients and melt the cheese.
  • Remove and serve immediately!

Notes

  • Remember to let the frozen veggies thaw and pat them dry first before you use them for the recipe. 
  • If you’re using fresh veggies for the topping, saute them first, let them cool down and then use them. 
  • You can also use packaged pre-grilled veggies if you want to make things quicker. 

Nutrition

Serving: 1servingCalories: 418kcalCarbohydrates: 44gProtein: 25gFat: 19gSaturated Fat: 4gPolyunsaturated Fat: 1gMonounsaturated Fat: 0.4gCholesterol: 83mgSodium: 1756mgPotassium: 801mgFiber: 10gSugar: 11gVitamin A: 6888IUVitamin C: 25mgCalcium: 140mgIron: 4mg
Tried this Recipe? Let me know!Let us know how it was!

About Megan

Megan is a certified nutrition practitioner, author, freelance food photographer and fitness instructor living in Phoenix, Arizona. On her blog, Skinny Fitalicious she shares EASY, gluten free recipes for weight loss. Follow Megan on Facebook, Twitter, Pinterest and Instagram for the latest updates.

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    5 from 1 vote (1 rating without comment)

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    Recipe Rating




  1. Melissa says

    April 14, 2017 at 12:18 pm

    Is 5 minutes under the broiler enough to have the chicken cooked? Or did you pre-cook it? Thanks! Looks delicious! I'm making it now!

    Reply
    • Megan says

      April 14, 2017 at 12:34 pm

      I mentioned in the post that I used Trader Joe's chicken sausage and veggies and that they are precooked.

      Reply
  2. Laura @ Sprint 2 the Table says

    March 27, 2017 at 8:37 pm

    I could face plant into this. how have I not thought to do this??? I was actually craving pizza tonight too - which, oddly enough, is rare for me.

    Reply
    • Megan says

      March 28, 2017 at 6:33 pm

      You will love! I'm not sure about the wifey, but I'm sure you will figure something creative out for her.

      Reply
  3. Kelli @ Hungry Hobby says

    March 27, 2017 at 7:45 am

    Yum!!!!! Love when I find yummy stuff like this on a menu where you least expect it!

    Reply
    • Megan says

      March 27, 2017 at 4:05 pm

      Right? It was at Cucina Tagliani. Completely took me by surprise!

      Reply
  4. Patrick@looneyforfood.com says

    March 27, 2017 at 6:01 am

    I love spaghetti squash in both sweet and savory dishes! This looks amazing! I end up eating the same things over and over as well!

    Reply
    • Megan says

      March 27, 2017 at 4:05 pm

      Sweet? I'm intrigued! What sweet dishes have you used it in?

      Reply
  5. Susie @ Suzlyfe says

    March 27, 2017 at 3:53 am

    You know that I am totally into this. I love everything about it!

    Reply
    • Megan says

      March 27, 2017 at 4:06 pm

      I knew you would be love!

      Reply

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Megan is a nutritionist, author of the Low Calorie Cookbook and podcast host of the Dish On Ditching Diets. Megan helps women over 35 stop dieting, heal their relationship with food and lose weight sustainably. Megan lost 80 pounds herself. Here you get healthy, lower calorie recipes!

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