Perfectly cooked spaghetti squash is tossed with a flavor-packed Paleo & Whole30 pesto and seasoned chicken for a healthy filling meal even squash haters will love! This Paleo spaghetti squash dinner makes great leftovers too! Whole30, dairy free and low carb.
I need to begin this post by telling you I am very picky about my spaghetti squash. So picky, that this is just the second recipe ever on this blog including it as an ingredient.
Maybe you guys can relate – spaghetti squash is not one of those “sure things”, have you been there? Overcooking it by just a few minutes leaves it mushy, and tasting like flavorless, well, squash, rather than anything remotely related to pasta.
On the flip side, undercooking it by just a few minutes leaves it far too stringy and “raw” tasting, in my opinion – once again, nothing at all like spaghetti.
I WISH I could claim that this recipe will magically fool you into thinking you’re eating actual spaghetti, not squash.
But I’ll be honest – while it’s still clearly a vegetable in the recipe (no getting past that, in my opinion) I did a few things here to make this the best darned spaghetti squash that I’ve ever eaten. I really think you’ll agree. A squash-hating husband, who actually ate this in front of me, and liked it, does not lie.
I think there are two things involved in cooking the perfect squash. First, cooking it at the right temperature for the right amount of time, and removing the squash based on how it feels (it should give a bit when pushed from the top.)
Since the “push test” isn’t always completely accurate, it doesn’t hurt to test out a few strands either a couple of minutes early – since oven temps vary along with the size of your squash, it can’t hurt to test it – you can always stick it right back in the oven if it’s not ready yet.
The second thing is “draining” the squash. Since it IS indeed a vegetable, there will definitely be excess water released when it roasts.
I recommend removing all the spaghetti into a large bowl lined with paper towels, then, using another paper towel, squeezing/blotting the cooked spaghetti squash to remove excess water. A little bit of water removed will make a big difference in the texture of the final dish!
Enough about the squash for now, let’s move onto the pesto! I’ve been making a version of this particular walnut pesto for years, and recently added in nutritional yeast for a kick of “cheesy” flavor. The pesto recipe itself is printed fully in the post for pesto baked chicken.
While I used walnuts, others have told me they’ve subbed pine nuts with great results. It’s a great versatile pesto recipe that goes well with everything – especially, as it turns out, with spaghetti squash – and maybe (just maybe) it’ll get me over my mushy-squash trauma 🙂
The recipe itself is simple, and one of those that can be mostly made ahead of time to save tons of time!
Roast and drain the squash, make the pesto, cook the chicken, combine, and then bake for 10 minutes to heat through and combine the flavors. If you cook during your meal prep, you can have everything together in just 15 minutes!
If you want a few extra yummy add-ins, lightly roasted cherry tomatoes and crispy bacon crumbles would be delicious. That said, we enjoyed it as-is, so no need to get fancy. Are you guys ready to cook? Let’s go!!
Chicken Pesto Paleo Spaghetti Squash {Whole30}
Chicken Pesto Paleo Spaghetti Squash {Whole30}

Ingredients
- 1 med/med-large spaghetti squash
- 3/4-1 cup my favorite Paleo/Whole30 Pesto recipe this recipe makes extra, use as much as you need to fully toss with your spaghetti squash
- 1.5 lbs boneless skinless chicken breasts thin sliced or pounded to 1/2" thickness
- 2 Tbsp coconut oil ghee, or other cooking fat, to sauté the chicken
- Sea salt pepper, and onion powder to season chicken
Instructions
-
First, roast the squash (you can do this step a day ahead of time, or during your meal prep and simply store the cooked squash in the fridge until ready to use.
-
Preheat your oven to 425 degrees F and line a large baking sheet with foil or parchment.
-
Cut the squash in half, lengthwise using a large sharp knife. Scoop out (I use a large spoon) the seeds and strings, then place face-down on a foil lined baking sheet.
-
Roast in the 425 oven for about 20 minutes or until the squash can be pushed from the outside a bit with your finger. Do not over cook or it will be mushy! Once you remove the squash, lower the oven to 400 degrees.
-
Allow the squash to cool enough to handle, and, using a fork going lengthwise down the squash, remove spaghetti strings from both sides of the squash and place in a large bowl.
-
To "drain" the squash, squeeze once or twice between paper towels to absorb excess moisture, as you would with frozen spinach, for example. This step is important to get the texture of the dish right, no mushy, watery spaghetti squash!
-
While the squash roasts, you can prepare your pesto using this recipe, or prepare it ahead of time and store in the fridge until ready to use.
-
While the squash rests, cook the chicken. Heat a large skillet over med/med-hi heat and add your cooking fat. Sprinkle the chicken lightly with salt, pepper, and onion powder on both sides, then add to the pan and cook 2-3 minutes on each side, or until no longer pink in the center. Remove from pan to a plate, and allow to cool a bit. Once cool enough to handle, slice or chop into bite size pieces.
-
In a casserole dish, gently toss the spaghetti with the chicken and pesto to fully coat, (about 1 cup)
-
You'll have enough extra pesto - don't drown the spaghetti squash in pesto! Save it for another use.
-
Put the casserole dish in the oven for about 10 minutes, or enough time to fully heat through and blend everything. Remove and serve!
-
Additional delicious add-ins include cooked and crumbled bacon, and lightly roasted cherry tomatoes. Enjoy!
Recipe Notes
*Prep time includes the time needed to cut and scoop the squash, and make the pesto. Cook time includes the time to cook the squash and chicken
Nutrition
Want more meal ideas like this Paleo Spaghetti Squash? Try one of these!
Easy One-Pan Bacon Wrapped Chicken
Zucchini Pasta with Chicken and Scallion Avocado Sauce
Creamy Tomato Basil Butternut Squash Chicken Bake
Tell Me!
Have you made Paleo pesto?
Any spaghetti squash cooking secrets/tips?
Note: This post contains affiliate links. This means that if you click on a link and make a purchase, I will receive a small commission at no cost to you. Thank you for supporting Paleo Running Momma!
This is such a great low-carb alternative to pasta. The pesto makes it feel indulgent but it’s totally paleo-friendly.
I’ve been looking for new paleo dinner ideas and this Chicken Pesto Spaghetti Squash is perfection. Easy, clean, and delicious.
The step-by-step instructions were super clear. My kitchen smelled amazing while cooking this — thanks for sharing!
I swapped the chicken for shrimp and it still turned out incredible. The pesto ties everything together beautifully.
Made this for lunch meal prep and it reheated really well all week. Love finding paleo recipes that actually taste this good!
For an easy, research-inspired way to decode your love style, visit Lovetype.org. The 16-type romance quiz delivers a clear report and compatibility guide—fast to take, helpful to share.