If you’re craving something fresh, hearty, and totally satisfying without throwing your carb count out of whack, this Keto Chicken Pesto Spaghetti Squash Bowls Recipe is an absolute game-changer. I discovered this recipe when I wanted to enjoy “pasta” night but with way fewer carbs, and it’s now a staple in my weekly rotation. You’ll love the combination of tender spaghetti squash, juicy chicken, vibrant basil pesto, and melty mozzarella—all baked right in the squash shells for a show-stopping presentation!
Why You’ll Love This Recipe
- Low Carb & Keto-Friendly: Perfect for keeping carbs low without sacrificing flavor or comfort.
- Simple Ingredients: Uses kitchen staples that come together quickly for an easy weeknight meal.
- Versatile and Customizable: You can swap out proteins or adjust seasoning to fit your taste and dietary needs.
- Impressive Presentation: Serving in the squash halves adds flair and keeps this dinner feeling special.
Ingredients You’ll Need
All the ingredients in this Keto Chicken Pesto Spaghetti Squash Bowls Recipe complement each other beautifully—the mild sweetness of the squash, the vibrant punch of basil pesto, and that gooey mozzarella finish make every bite a delight. Plus, you don’t need anything crazy to pull this off, which makes it ideal for busy days.
- Spaghetti squash: Look for a medium-sized squash, around 2-3 pounds, so it cooks evenly and fits comfortably on your baking sheet.
- Chicken breasts: Fresh or leftover chicken works perfectly; opt for boneless for easy slicing.
- Basil pesto: Homemade pesto shines here, but store-bought is a great shortcut—and the flavor is still fantastic.
- Shredded mozzarella cheese: Whole milk mozzarella melts better and adds richness.
- Vegetable oil: Helps the squash roast to a nice tender texture without drying out.
- Salt and black pepper: Basic, but essential to bring all the flavors together.
Variations
I love how versatile this Keto Chicken Pesto Spaghetti Squash Bowls Recipe is—once you get the basics down, you can really make it your own depending on what’s in your fridge or what flavors you’re craving that day.
- Swap the chicken: I’ve replaced chicken with shrimp or even roasted mushrooms for a vegetarian twist, and it works beautifully.
- Cheese variations: Sometimes I like to mix mozzarella with Parmesan or goat cheese for different textures and sharper flavors.
- Spicy pesto: Adding a pinch of red pepper flakes to the pesto creates a lovely kick that’s unexpected but so tasty.
- Add veggies: Roasted cherry tomatoes or sautéed spinach folded in add freshness and color, perfect for extra nutrients.
How to Make Keto Chicken Pesto Spaghetti Squash Bowls Recipe
Step 1: Roast the Spaghetti Squash Just Right
Preheat your oven to 400°F. Cutting the spaghetti squash lengthwise can be a workout—don’t rush! I like to set it on a damp kitchen towel to hold it steady. Once sliced, scoop out the seeds with a spoon and then drizzle the insides with vegetable oil, seasoning generously with salt and pepper. Place the squash halves cut-side down on a baking sheet lined with parchment paper or a silicone baking mat to avoid sticking. Roast for 30-40 minutes or until you can easily pierce the flesh with a knife and it feels tender but not mushy. This slow roasting brings out a natural sweetness that really shines in the final dish.
Step 2: Prep and Cook Your Chicken
While the squash is roasting, it’s time to cook the chicken. I like to keep it simple—drizzle with oil, sprinkle with salt, pepper, and a little garlic powder, then bake in the oven alongside the squash. This means less cleanup and perfectly timed cooking. Alternatively, leftover cooked chicken works excellently here (which is a lifesaver on busy nights). Once cooked through, slice the chicken into strips or bite-sized chunks.
Step 3: Fluff, Mix, and Assemble
Once the squash halves are cool enough to handle, grab a fork and gently rake the flesh to create those beautiful “noodles” that make this dish so fun and unique. Stir half a cup of pesto into each squash bowl – this is where all the flavor magic happens. Next, nestle your cooked chicken either on top or folded into the squash-pesto mixture. Finally, shower the surface with shredded mozzarella cheese, your comfort factor here!
Step 4: Bake Until Melty and Delicious
Pop the stuffed squash bowls back in the oven for about 15 minutes to let the cheese melt to bubbly perfection. If you want that golden, slightly crisp cheese crust, broil them for a minute or two—but watch closely so nothing burns. For a finishing touch, drizzle a bit more pesto on top just before serving. This extra pop of green freshness is something I always do, and my family goes crazy for it every time!
Pro Tips for Making Keto Chicken Pesto Spaghetti Squash Bowls Recipe
- Cutting Safety: Use a sharp knife and take your time slicing the spaghetti squash; stabilizing with a damp towel helps prevent slips.
- Pesto Mix-In: Stir pesto gently to avoid mashing your squash noodles, keeping a nice “spaghetti” texture.
- Cheese Choice: Freshly shredded mozzarella melts better than pre-shredded, which often contains anti-caking agents.
- Don’t Overcook: Avoid baking the squash too long before assembling to keep fibers tender but not dry or crumbly.
How to Serve Keto Chicken Pesto Spaghetti Squash Bowls Recipe

Garnishes
I love topping these bowls with extra fresh basil leaves and a sprinkle of toasted pine nuts for a bit of crunch and that authentic pesto vibe. Sometimes, for a tangy punch, a light drizzle of lemon juice brightens every bite.
Side Dishes
I often pair this with a crisp green salad dressed in a simple lemon vinaigrette or roasted asparagus to keep the meal light and fresh but feeling complete. Garlic butter sautéed green beans also make a fantastic, keto-friendly side that my family adores.
Creative Ways to Present
For special occasions, I’ve served these squash bowls on a wooden platter lined with fresh herb sprigs—which makes for a rustic, elegant presentation. You can even hollow out smaller squash halves to create individual “bowls” perfect for dinner parties or meal prep grabs-and-go.
Make Ahead and Storage
Storing Leftovers
I store leftover cheese chicken pesto spaghetti squash in an airtight container in the fridge for up to 3 days. When refrigerated in the squash shells, they keep their shape and flavor nicely without drying out.
Freezing
Freezing this dish works but I recommend freezing the components separately if you can—roasted squash and cooked chicken both freeze well. Pesto and cheese are better added fresh after thawing to preserve their texture. When reheated, you’ll still get delicious results.
Reheating
I usually reheat leftovers gently in the oven at 350°F, covered loosely with foil to keep moisture in, for 15-20 minutes. Avoid microwaving too long or you might end up with soggy squash and rubbery chicken.
FAQs
-
Can I use store-bought pesto in this recipe?
Absolutely! Store-bought pesto is a great shortcut and still adds fantastic flavor to the Keto Chicken Pesto Spaghetti Squash Bowls Recipe. Just pick a good-quality pesto with fresh basil and olive oil for the best taste.
-
What if I don’t have chicken breasts? Can I substitute another protein?
Yes! You can swap chicken breasts for thighs, shrimp, or even use cooked sausage. Vegetarian options like roasted mushrooms or tofu also work well. Just adjust cooking times as needed.
-
How do I know when the spaghetti squash is perfectly roasted?
The squash is done when it’s tender all the way through and you can easily pierce it with a knife or fork. The strands should easily separate but not be mushy.
-
Can I make this recipe dairy-free?
Definitely! You can omit the mozzarella or use a dairy-free cheese substitute. Nutritional yeast sprinkled on top before baking can add a cheesy flavor without dairy.
Final Thoughts
I absolutely love how this Keto Chicken Pesto Spaghetti Squash Bowls Recipe brings vibrant flavors and comfort food vibes with none of the carb guilt. Every time I make it, even picky eaters in my family end up licking their plates. It strikes the perfect balance of fresh, cheesy, and savory that keeps me coming back for more. If you’re looking to impress yourself (and your loved ones) with an easy, healthy, and delicious dinner, this recipe is the one to try. Trust me, you’ll be so glad you did!
Print
Keto Chicken Pesto Spaghetti Squash Bowls Recipe
- Prep Time: 10 minutes
- Cook Time: 45 minutes
- Total Time: 55 minutes
- Yield: 4 servings
- Category: Main Course
- Method: Baking
- Cuisine: American
- Diet: Keto
Description
A delicious and healthy keto-friendly recipe featuring roasted spaghetti squash filled with tender chicken breast, flavorful basil pesto, and melted mozzarella cheese. This low-carb dish offers a satisfying and cheesy alternative to traditional pasta, perfect for a comforting dinner that fits a ketogenic lifestyle.
Ingredients
Spaghetti Squash
- 1 spaghetti squash (2-3 pounds)
Chicken
- 2 chicken breasts
Pesto & Cheese
- 1 cup basil pesto
- 1 cup shredded mozzarella cheese
Seasonings & Oil
- Vegetable oil, for drizzling
- Salt, to taste
- Black pepper, to taste
Instructions
- Preheat Oven: Preheat your oven to 400°F (200°C) to prepare for roasting the spaghetti squash and cooking the chicken.
- Prepare the Spaghetti Squash: Carefully cut the spaghetti squash in half lengthwise, using a towel to stabilize it if needed. Scrape out the seeds from each half using a spoon.
- Season the Squash: Drizzle vegetable oil inside the squash halves and sprinkle with salt and black pepper evenly to enhance flavor during roasting.
- Roast the Squash: Place the squash halves cut side down on a baking sheet and roast in the oven for 30-40 minutes until the flesh is tender when pierced with a knife. Remove and let cool enough to handle.
- Cook the Chicken: While the squash roasts, drizzle chicken breasts with oil, season with salt, pepper, and garlic powder, then bake in the oven alongside the squash until cooked through. Alternatively, use pre-cooked chicken. Once done, slice the chicken into strips.
- Prepare the Squash ‘Noodles’: Use a fork to fluff and shred the spaghetti squash flesh inside each half, creating noodle-like strands.
- Mix Pesto with Squash: Add 1/2 cup basil pesto to each squash half and mix well to combine with the shredded squash.
- Add Chicken: Top each squash boat with the cooked chicken strips or toss the chicken into the squash and pesto mixture evenly.
- Top with Cheese and Bake: Sprinkle shredded mozzarella cheese evenly over the squash and chicken. Bake for about 15 minutes in the oven until cheese melts completely.
- Broil for Browning (Optional): For browned cheese, place the squash under the broiler briefly, making sure not to burn anything by removing parchment or silicone mats first.
- Serve: Drizzle with additional pesto if desired and serve immediately for a warm, cheesy keto meal.
Notes
- This dish is perfect for a keto or low-carb diet, combining nutrient-rich vegetables, protein, and healthy fats.
- Leftover cooked chicken works well for convenience, saving prep time.
- Adjust pesto quantity to taste or try other pesto varieties, such as sun-dried tomato pesto, for different flavors.
- Ensure to handle the hot squash carefully after roasting to avoid burns.
- Spaghetti squash can be stored cooked in the refrigerator for up to 3 days for quick meal prep.
Nutrition
- Serving Size: 1 serving
- Calories: 528 kcal
- Sugar: 9 g
- Sodium: 927 mg
- Fat: 34 g
- Saturated Fat: 9 g
- Unsaturated Fat: 22 g
- Trans Fat: 0 g
- Carbohydrates: 22 g
- Fiber: 5 g
- Protein: 35 g
- Cholesterol: 99 mg


