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Broccoli Cheddar Spaghetti Squash Casserole

40 Reviews Recipe
gf nf
By: Erin Antoniak • Updated On May 19, 2025

Cook up a dreamy, cheesy meal with this Broccoli Cheddar Spaghetti Squash Casserole. It’s like your favorite soup transformed into a casserole and combined with other flavor-bomb ingredients!

Broccoli Cheddar Spaghetti Squash Casserole in bowl

A deliciously cheesy broccoli cheddar chicken casserole

Broccoli cheddar lovers, listen up! Today we’re giving the classic flavor combo a spin and baking it casserole-style with this delicious broccoli cheddar spaghetti squash casserole creation.

The dish features the obvious: cheddar cheese and broccoli, but it also includes flavorful ingredients like minced garlic, onion, spaghetti squash, and even Greek yogurt. It’s a multi-layered dish that you’re going to devour!

If you’ve never cooked with spaghetti squash, don’t worry. This detailed tutorial will walk you through it! It’s a great ingredient to add to meals for filling them with low-calorie density and great taste.

Broccoli Cheddar Spaghetti Squash Casserole

Ingredients in baked spaghetti squash casserole

  • Spaghetti squash: Start with 1 whole spaghetti squash. It should be around 2-2.5 lb and amount to 4 cups after being cooked and shredded.
  • Chicken: Next, you will need 4 cups of cooked chicken. You can bake and dice it or use pulled chicken from a rotisserie.
  • Avocado oil: Use 2 tbsp of avocado oil to cook the onion and broccoli.
  • Onion: As for the onion, you’ll need 1/2 of a large yellow onion, diced.
  • Broccoli: Next, roughly chop up 5 cups of broccoli.
  • Garlic: Add flavor with 4 cloves of minced garlic.
  • Yogurt: 1 cup of plain Greek yogurt will be used to add consistency and flavor to the casserole.
  • Cheese: Add delicious cheesiness with 1.5 cups of cheddar, divided.
  • Seasonings: Add additional flavor by including 2 tsp of salt, 1/2 tsp of pepper, 2 tsp of garlic powder, and 2 tsp of onion powder.
  • Eggs: Finally, you will need 2 whisked eggs.

Tools needed to create this recipe

To make broccoli cheddar spaghetti squash casserole, you will need a baking dish and nonstick spray. You’ll also need a large pan, spatula, large mixing bowl, stirring utensil, and whisk.

For measuring, grab the following sized cups: 1/2 tsp, 1 tsp, 1 tbsp, 1/2 cup, and 1 cup.

Photo of ingredients for Broccoli Cheddar Spaghetti Squash Casserole with labels.
broccoli cheddar spaghetti casserole in dish

How to make broccoli cheddar spaghetti squash casserole

You’re just over an hour away from an ooey, gooey, cheesy, and warm casserole that tastes delicious and is so satisfying! You will need about 10 minutes for prepping and around an hour for cooking and baking.

First, preheat the oven to 400°F and grease a 9×13 baking dish.

Prepare the spaghetti squash according to how to cook spaghetti squash, or use your preferred squash cooking method.

Then, prepare the chicken. I used a rotisserie and it worked great!

Heat the avocado oil in a large pan over medium-high heat and add the onion. After one minute, add the broccoli.

Cook the onions and broccoli for 6-7 minutes or until they begin to tenderize, and then add the garlic for the last minute of cooking. Turn off the heat.

In a large bowl, add the spaghetti squash, chicken, broccoli and onions, Greek yogurt, 1 cup of cheese, salt, pepper, garlic powder, and onion powder. Stir until well combined.

Add the whisked eggs. Stir until everything is mixed well.

Pour the mix into the greased baking dishes and top with the remaining cheese.

Bake for 45-50 minutes, or until the inside is set and bubbling.

Let cool for 15 minutes before eating.

Broccoli Cheddar Spaghetti Squash Casserole

Substitution Tip

Throughout this recipe there are a couple of substitutions you can try out.

Avocado Oil
You can use any cooking oil — olive, coconut, canola, vegetable, etc. If using coconut, choose a refined version so you don’t wind up with a coconut flavor.

Yellow Onion
Though I recommend yellow onion in this dish, white or red will also work!

Cauliflower
Feel free to switch the broccoli for cauliflower if that’s more your style.

Cheddar Cheese
Cheddar can be replaced with your favorite cheeses like pepper jack, mozzarella, or even Swiss!

If you liked this recipe, you’ll want to try these!

I love combining squash into my casseroles and even using it in soup! Here are some yummy squash recipes using both spaghetti and butternut variations.

  • Lemon Chicken Spaghetti Squash Casserole
  • Butternut Squash Soup (Vegan, Dairy-free)
  • Barbecue Chicken Spaghetti Squash Boats

Recipe by Erin Antoniak and Photos by Bake and Bacon

Broccoli Cheddar Spaghetti Squash Casserole in bowl
Broccoli Cheddar Spaghetti Squash Casserole in bowl
5 Stars 4 Stars 3 Stars 2 Stars 1 Star 5 from 40 reviews

Broccoli Cheddar Spaghetti Squash Casserole

Cook up a dreamy, cheesy meal with this Broccoli Cheddar Spaghetti Squash Casserole. It’s like your favorite soup transformed into a casserole and combined with other flavor-bomb ingredients!

Prep: 60 Cook: 60 Total: 2 hours
Yield 10 servings 1x
Scale
Print Pin it Rate

Ingredients

  • 1 spaghetti squash (2 – 2.5 lb, cooked and shredded) – about 4 cups
  • 4 cups cooked chicken, diced or pulled rotisserie
  • 2 tbsp avocado oil
  • 1/2 large yellow onion, diced
  • 5 cups roughly chopped broccoli
  • 4 cloves garlic, minced
  • 1 cup plain Greek yogurt
  • 1.5 cups cheddar cheese (divided)
  • 2 tsp salt
  • 1/2 tsp pepper
  • 2 tsp garlic powder
  • 2 tsp onion powder
  • 2 eggs, whisked.

Instructions

  1. Preheat oven to 400F and grease 9×13 baking dish.
  2. Prepare your spaghetti squash according to this recipe, or however else you make cooked spaghetti squash. Prepare your chicken as well. I used rotisserie chicken for this and it worked great.
  3. In a large pan, heat avocado oil and onion over medium-high heat. After a minute, add in broccoli.
  4. Cook onions and broccoli for 6-7 minutes or until begin to tenderize, and then add garlic for last minute of cooking. Turn off heat.
  5. In a large bowl, add spaghetti squash, chicken, broccoli and onions, greek yogurt, 1 cup of cheese, salt, pepper, garlic powder, and onion powder. Stir until well combined.
  6. Add in whisked eggs and stir until everything is mixed together well.
  7. Pour into greased 9×13 baking dish. Top with remaining cheese.
  8. Bake for 45-50 minutes or until inside is set and bubbling.
  9. Let cool 15 minutes before eating.
Author: Erin Antoniak Category: meal prep, lunch, casserole, dinner Method: oven Cuisine: American Diet: Gluten Free
Broccoli Cheddar Spaghetti Squash Casserole in bowl

Did you make this?

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Recipe Rating




  1. Claire says

    Posted on 11/23 at 7:52 pm

    So so so good!! Made this for the fam while I’m home for thanksgiving and let’s just say there were no leftovers 😋

    Reply
    • Erin says

      Posted on 11/24 at 12:42 pm

      Hi Claire, so happy you and your family loved it so much!! 🙂

      Reply
  2. Alex says

    Posted on 11/17 at 2:55 pm

    made this for dinner and could not get enough!! everything you love about a comforting casserole AND mostly veggies? so amazing! my fiancé has requested it be part of the rotation and it definitely will be.

    Reply
    • Erin says

      Posted on 11/18 at 2:01 pm

      Hi Alex, I am so glad you both enjoyed it!! 🙂

      Reply
  3. Sara says

    Posted on 11/15 at 9:39 pm

    This was a great meal and pretty easy. Just allow the prep time for the spaghetti squash! We ate this on top of baked potatoes as a healthier loaded baked potato and had green beans as a side. So yummy!!

    Reply
    • Erin says

      Posted on 11/16 at 8:54 am

      Hi Sara, so happy you enjoyed it and great additions!!

      Reply
  4. Erin says

    Posted on 11/14 at 11:32 pm

    Easy to make and the whole family loved it!

    Reply
    • Erin says

      Posted on 11/15 at 2:33 pm

      Hi Erin, I am so happy everyone enjoyed it!!

      Reply
  5. Christina says

    Posted on 11/14 at 12:49 pm

    Totally not a casserole person but I’m excited to try this because of the spaghetti squash. Is this a dish I can make the morning of then pop in the oven at night??

    Reply
    • Erin says

      Posted on 11/15 at 2:16 pm

      Hi Christina, yay let me know how it comes out and yes that should be fine!

      Reply
  6. Michelle says

    Posted on 11/12 at 9:17 am

    This was so tasty!! My partner can be picky about casseroles and he said he would have this again. Looking forward to the leftovers!

    Reply
    • Erin says

      Posted on 11/12 at 12:42 pm

      Hi Michelle, so glad you both liked it!!

      Reply
  7. Leah says

    Posted on 11/11 at 6:23 pm

    Newer follower and have enjoyed all the recipes I’ve made so far, but this was fantastic! I am GF so good casseroles that taste like comfort food can be hard to find. This was perfect! I had to use frozen spaghetti squash because my store was out of fresh but it worked great and was so easy. 10/10.

    Reply
    • Erin says

      Posted on 11/12 at 12:39 pm

      Hi Leah, welcome!! So happy you loved it so much! Thanks for sharing!!

      Reply
  8. Georgia says

    Posted on 11/11 at 12:45 pm

    Made this last night and it is such a good use for spaghetti squash! Absolutely delicious and will be a staple in the dinner meals! Warming up leftovers for lunch and so excited

    Reply
    • Erin says

      Posted on 11/11 at 1:06 pm

      Hi Georgia, so happy you loved it! 🙂

      Reply
  9. Laura says

    Posted on 11/11 at 12:37 pm

    Yum! Love when I’m able to prep something and just pop it in the oven when I get home from work and from daycare pickup. I received the world’s smallest spaghetti squash via Instacart so I used two cups of spaghetti squash and two cups of some leftover wild rice that I had from another recipe and it was great!!

    Reply
    • Erin says

      Posted on 11/11 at 1:06 pm

      Hi Laura, so happy you loved it! Thanks for sharing! 🙂

      Reply
  10. Rachel says

    Posted on 11/10 at 6:33 pm

    This was AMAZING! I will definitely be making this again, it was so delicious. Your recipes never disappoint!

    Reply
    • Erin says

      Posted on 11/11 at 12:40 pm

      Hi Rachel, so glad you loved it and thanks for sharing!!

      Reply
  11. Jamie says

    Posted on 11/9 at 7:54 pm

    So delicious, as always!!!

    Reply
    • Erin says

      Posted on 11/10 at 9:33 am

      Hi Jamie, so happy you enjoyed it!!

      Reply
  12. Lena says

    Posted on 11/7 at 8:50 pm

    This is so amazing! I love that is healthy and protein packed but it honestly tastes like an indulgent, hearty, cheesy casserole. My husband loved it too. Can’t wait to the leftovers for lunch! We will definitely be making this again.

    Reply
    • Erin says

      Posted on 11/8 at 4:42 pm

      Hi Lena, so glad you both loved it!! 🙂

      Reply
  13. Nicole Cramer says

    Posted on 11/7 at 7:20 pm

    So delicious! We had seconds right away it was so good

    Reply
    • Erin says

      Posted on 11/8 at 4:42 pm

      Hi Nicole, I am so glad you liked it!!

      Reply
  14. Sam says

    Posted on 11/7 at 3:34 pm

    Holy yum! 10/10! I love anything broccoli cheese- so I was excited to make this for my weekly meal prep. I subbed the spaghetti squash for butternut (what I had on hand at the time) and it still turned out perfect! The texture and taste is 100%!

    Reply
    • Erin says

      Posted on 11/8 at 4:41 pm

      Hi Sam, so happy you enjoyed it!! 🙂

      Reply
  15. Courtney says

    Posted on 11/7 at 3:00 pm

    Hi Erin – awesome recipe and we made it vegetarian using great northern white beans, instead of chicken. Delicious!

    Reply
    • Erin says

      Posted on 11/8 at 4:40 pm

      Hi Courtney, so glad you liked it and made it your own!!

      Reply
  16. Kelly says

    Posted on 11/7 at 9:24 am

    So delicious! Adding this into our rotation of go-to meals because it is so good, easy to make, and gives us leftovers for a couple of meals!

    Reply
    • Erin says

      Posted on 11/7 at 12:28 pm

      Hi Kelly, I am so happy you loved it!

      Reply
  17. Rachel Ruiz says

    Posted on 11/4 at 2:40 pm

    So so so freaking delicious! I will be making this often!!

    Reply
    • Erin says

      Posted on 11/5 at 12:57 pm

      Hi Rachel, so happy you loved it!!

      Reply
  18. Nicole says

    Posted on 11/4 at 9:08 am

    I had run out of creative uses for spaghetti squash so was thrilled to make this and it turned out even much better than I imagined! Sooo flavorful and comforting. My boyfriend has demanded this be added to our regular rotation. Thanks Erin!!

    Reply
    • Erin says

      Posted on 11/4 at 9:43 am

      Hi Nicole, so happy you both loved it!! I also have Barbecue Chicken Spaghetti Squash Boats https://www.erinliveswhole.com/barbecue-chicken-spaghetti-squash-boats/ and Lemon Chicken Spaghetti Squash Casserole https://www.erinliveswhole.com/lemon-chicken-spaghetti-squash-casserole/ too if you want to try one or both of them!! 🙂

      Reply
  19. Miranda says

    Posted on 11/3 at 7:43 pm

    Please please please, if you’re going to have a print button, link to something that is formatted for printing. Currently, this recipe loads up across three pages with odd page breaks.

    It makes the recipe hard to follow and turns me off from trying it

    Reply
    • Nicole says

      Posted on 11/4 at 9:16 am

      There are options at the top where you can deselect images/notes/nutrition label, change font size, etc if desired! It printed fine for me 🙂

      Reply
      • Erin says

        Posted on 11/4 at 9:43 am

        Thanks Nicole!!

    • Erin says

      Posted on 11/4 at 9:57 am

      Hi Miranda, unfortunately, that must just be the way your computer has it laid out. We just tested this, and it is all on one page.

      Reply
  20. Avery says

    Posted on 11/2 at 10:09 pm

    This recipe is fantastic!!! So flavorful! I knew I had to make it the day it was posted and it didn’t disappoint! Smells amazing too! Such a great meal to have for leftovers!! Another great recipe!

    Reply
    • Erin says

      Posted on 11/3 at 11:58 am

      Hi Avery, so glad you enjoyed it!!

      Reply
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I’m Erin. Creator of Erin Lives Whole, a food blog with delicious and easy healthy recipes that will leave you feeling good. We’ve got everything from wholesome baked goods to comforting savory dishes. I can’t wait to see what you whip up! Read More...

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Broccoli Cheddar Spaghetti Squash Casserole
Broccoli Cheddar Spaghetti Squash Casserole
Broccoli Cheddar Spaghetti Squash Casserole
Broccoli Cheddar Spaghetti Squash Casserole