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When the skies are grey, and the air is chilly, I crank up the music (and the thermostat) and turn to a comforting dinner of cheesy Spaghetti Squash Boats with Chicken and bacon to warm my soul.

Low carb spaghetti squash boats with chicken, bacon, mozzarella, spinach, and garlic.

Is the weather a dominant topic of conversation where you live too?

It comes up often in Wisconsin. I wonder if people in California or Florida talk about the weather with the same frequency?

Can you bond over pleasant temps and abundant sunshine the way you can over frigid air and permaclouds?

While I can’t give you that answer, I can say with certainty that, no matter the temperature and region, we can all unite around simple, delicious weeknight dinners such as these spaghetti squash boats with chicken and bacon (or one of these other healthy baked casserole recipes).

They’re comforting enough for a cold Wisconsin night while being healthy enough to be appropriate for a lighter evening meal (just like this Spaghetti Squash Lasagna).

Spaghetti Squash Boats with Chicken, Bacon, and Cheese sprinkled with basil

5 Star Review

“My family loved it! We’ll be making it again.”

— Carolyn —

How to Make Spaghetti Squash Boats with Chicken

These spaghetti squash boats with chicken and bacon remind me of chicken Alfredo, without the heaviness and excess (unless it’s my healthy Chicken Alfredo Bake). They are creamy, cheesy, and satisfying, but (unlike chicken Alfredo) they are well-balanced and won’t send you into a total food coma afterward.

The Ingredients

  • Spaghetti Squash. Instead of pasta, these spaghetti squash boats rely on the roasted spaghetti squash itself (like this Spaghetti Squash Lasagna), which shreds into thin, noodle-like strands.
  • Greek Yogurt. Replaces Alfredo’s signature heavy cream for a protein-packed healthy swap (also used in my favorite healthy Turkey Tetrazzini).
  • Chicken. Lean and juicy chicken breasts deliver protein without excess fat (however if you prefer dark meat, feel free to swap for thighs.
  • Garlic. Adds some zippy Italian flair.
  • Spinach. A handful of sautéed greens gives the dish beautiful color and an extra serving of veg.
  • Bacon. Keep things from becoming *too* virtuous (we are still going for comfort food, after all). I love the way the crunchy pieces contrast with the creamy Greek yogurt and tender chicken (similar to this Chicken Bacon Ranch Casserole).
  • Mozzarella. Because cheese is love. It gets mixed right in with the other “stuffing” ingredients and then melted on top too for good measure.
Easy Spaghetti Squash Boats with Bacon, Chicken, and Cheese.

The Directions

  1. Roast the spaghetti squash according to this recipe for Roasted Spaghetti Squash.
  2. Meanwhile, cook the bacon until crisp. Remove to a paper towel-lined plate.
  3. Cook the chicken in 1 tablespoon of reserved bacon fat and season with garlic powder, salt, and pepper.
  4. Toss in the spinach. Stir until wilted, then add the Greek yogurt, basil, and half of the mozzarella cheese. Remove from heat.
  5. Use a fork to shred the spaghetti squash, keeping it in each squash half.
  6. Divide the chicken filling among the boats, and gently mix it into the shredded squash.
  7. Sprinkle with bacon and remaining mozzarella cheese, then bake until the cheesy is bubbly. ENJOY!

Make Ahead and Storage Tips

  • To Make Ahead. The squash can be roasted and “shredded” up to 1 day in advance. The entire dish can be assembled up to 1 day in advance as well. Bake as directed just before serving.
  • To Store. Leftovers can be stored in the refrigerator for 4 to 5 days.
  • To Reheat. Reheat in the oven or gently in the microwave until hot.
  • To Freeze. I do not recommend freezing, as the spaghetti squash will become mushy.
Healthy Spaghetti Squash Boats with Chicken, Bacon, and Cheese.

How’s the weather in your neck of the woods? I hope it’s as pleasant and lovely as these easy spaghetti squash boats with chicken!

Frequently Asked Questions

Are Spaghetti Squash Boats Gluten Free?

Yes, the recipe for these spaghetti squash boats with chicken, as it is written, is entirely gluten free.

Can I Make Spaghetti Squash Boats with Ground Turkey?

I have not tried this particular recipe with ground turkey, however, I think it would be a wonderful swap for the chicken (see these Taco Spaghetti Squash Boats). Simple brown the turkey until cooked through and then finish preparing as directed in the recipe.

How Can I Make Vegetarian Spaghetti Squash Boats?

For a vegetarian version, you can omit the chicken and bacon (or swap them for a plant-based alternative). Then, load up on your favorite veggies. Roasted red peppers, portabello mushrooms, or roasted eggplant would all be lovely in this recipe. (These Quinoa Stuffed Peppers are another great “stuffed” vegetarian entree to try.)

Spaghetti Squash Boats with Chicken

4.84 from 36 votes
These easy and healthy spaghetti squash boats are stuffed with creamy chicken, bacon, spinach, and cheese. A comforting low carb recipe!

Prep: 10 minutes
Cook: 1 hour 5 minutes
Total: 1 hour 15 minutes

Servings: 4 servings


For the Roasted Squash

For the Stuffing

  • 4 strips thick-sliced center-cut bacon roughly chopped
  • 1 pound boneless skinless chicken breasts cut into bite-sized pieces
  • 1/4 teaspoon kosher salt
  • 1/4 teaspoon ground black pepper
  • 1/2 teaspoon garlic powder
  • 2 cups baby spinach torn into pieces
  • 1/2 cup nonfat plain Greek yogurt
  • 1 cup part-skim mozzarella cheese divided
  • 2 tablespoons chopped fresh basil plus additional for serving


  • Place a rack in the center of your oven and preheat the oven to 400 degrees F. Roast the spaghetti squash according to this recipe for Roasted Spaghetti Squash. Remove from the oven and set aside to cool. Reduce the oven temperature to 350 degrees F.
  • Meanwhile, heat a large saucepan over medium and add the bacon. Cook until the bacon is crisp and the fat has rendered; about 8 minutes. With a slotted spoon, remove the bacon to a paper towel-lined plate and pat dry.
  • Discard all but 1 tablespoon bacon fat from the pan and increase the heat to medium-high. Add the chicken pieces to the pan and season with garlic powder, 1/4 teaspoon salt, and 1/4 teaspoon pepper. Sauté until the chicken is cooked through, about 5 minutes.
  • Remove from the heat, then add the spinach. Stir the chicken and spinach together until the spinach wilts, then stir in the Greek yogurt, half of the mozzarella cheese, and basil.
  • Once the squash is cool enough to handle, use a fork to shred and fluff the inside flesh so it's no longer attached to the walls and makes a "nest."
  • Divide the chicken filling evenly among the boats, using a fork to lightly mix it with the spaghetti squash. Arrange the stuffed squash on a baking sheet and sprinkle with the reserved bacon and remaining mozzarella cheese.
  • Bake until the cheesy is bubbly, about 10 minutes. Let cool for a few minutes, then serve hot, sprinkled with additional fresh basil.


  • MAKE-AHEAD: The squash can be roasted and “shredded” up to 1 day in advance. The entire dish can be assembled up to 1 day in advance as well. Bake as directed just before serving.
  • TO STORE: Leftovers can be stored in the refrigerator for 4 to 5 days.
  • TO REHEAT: Warm in the oven or gently in the microwave.
  • TO FREEZE: I do not recommend freezing, as the spaghetti squash will become mushy.


Serving: 1(of 4)Calories: 538kcalCarbohydrates: 37gProtein: 42gFat: 27gSaturated Fat: 9gPolyunsaturated Fat: 4gMonounsaturated Fat: 10gTrans Fat: 1gCholesterol: 116mgPotassium: 1166mgFiber: 8gSugar: 15gVitamin A: 2223IUVitamin C: 16mgCalcium: 383mgIron: 3mg

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Erin Clarke

Hi, I'm Erin Clarke, and I'm fearlessly dedicated to making healthy food that's affordable, easy-to-make, and best of all DELISH. I'm the author and recipe developer here at and of The Well Plated Cookbook. I adore both sweets and veggies, and I am on a mission to save you time and dishes. WELCOME!

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  1. I made this last night and it was fantastic. I added some crushed red pepper and extra basil because we like things spicy. I also added a can of drained Italian tomatoes. This is definitely a keeper. I already printed and added it into my binder of recipes that I make regularly. Thanks for the great recipe:)5 stars

  2. My family loved it! We’ll be making it again. While there were a lot of steps they could be done quickly and after the squash cooked, all at once.5 stars

  3. Hi, thanks for the recipe! I decided to use a  lasagna pan instead of the Spaghetti squash shells and although it tastes  pretty good it is not as visually pleasing. Also the pan I used  spread the cheese too thin so it never quite bubbled.  I added mushrooms like a previous reviewer suggested and  sautéed onions    I also prepared the chicken on a grill pan for extra flavor and char. It took me a while to prepare so I’m not sure I will attempt this on a weeknight again but overall very good dish.  I appreciate your creativity and incorporating squash. Thanks again! 4 stars

      1. I had some already cooked but frozen chicken breasts and already seasoned, added bacon, mushrooms and onions sauteed it added the spinach and yogurt and put my spaghetti squash in a pan and added it all together with mozzarella. Will be adding this to the low fat list5 stars

  4. I laugh when people say “I made your recipe,” and then change it all up, but this is me today. I was looking for a spaghetti squash recipe and found this. I went to the store to get the ingredients but could not for the life of me find a small carton of plain yogurt! I decided to leave it out.  I roasted the squash while I raked the final leaves from my yard and then came in to make dinner. I forgot to get the chicken from the freezer so decided to use shrimp. I also added mushrooms. It turned our delicious!  So the basic recipe was yours, with no yogurt, added shrimp and mushrooms. ? Yummy! 5 stars

  5. My husband hates vegetables, and alfredo. (I adore both) I made this before we sold the house & moved in to a 35’ camper full time. Never expecting him to try it, he ate half the squash!! It’s a hit, and is quick & easy to whip up in limited space. A delicious favorite of us both!! Thank you for posting it!5 stars

  6. My son is autistic and adhd. He has suffered from sensory issues since he was 3. Food has been a constant battle for years. I started food chaining about 4-5 years ago and now he’s 9, he has become so much more adventurous and all of the hard work has paid off! He saw your recipe online and said hey mom let’s try this! So I made it, no spinach, we’re not there yet, and he LOVED it. This was the first time he had ever tried spaghetti squash. Even my husband who has always said he hates spaghetti squash said he loved it and asked me to make it again. Thank you so much for this recipe. It will be a weekly meal in our home and it will help introduce newer and healthier foods as we continue food chaining and overcoming all of his sensory challenges. ❤️5 stars

  7. Delicious but I altered it somewhat. I used peameal bacon, more spinach, and added pesto only for topping seasoning.I served it to someone not keen on veggies and he loved it.5 stars

  8. I love your recipes and often default to you over other with more reviews. This one didn’t really didn’t do it for me, it was really liquid when done and kind of bland. Could be that all my veg are fresh from the garden? I added hot pepper flakes to chicken mixture but didn’t really help.
    Your method of cooking spaghetti squash for a shorter period is perfect though, I do it that way all of the time. Thanks!4 stars

    1. Sorry to hear that you had trouble with the recipe, Kaydubb. The amounts and flavorings worked well for myself (and others) so I wished it would of been a hit for you too!

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