Healthy Zucchini Tomato Bake

Published by:
Liz Marino
| 04/22/2022 | Last Updated: 06/25/2025

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This Healthy Zucchini Tomato Bake recipe is an easy way to use up all your summer vegetables. Fresh, healthy and full of flavor- it’s the perfect side dish!

An overheat shot of Healthy Zucchini Tomato Bake in a cast iron skillet


 

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Is there anything better than sweet tomatoes, fresh zucchini and melty cheese? Nope! And this Healthy Zucchini Tomato Bake is the perfect low carb veggie side dish that is easy, delicious and quick to make! Great for summer veggies!

Years ago, Tyler’s mom made a variation of this Healthy Zucchini Tomato Bake, and I’ve loved it as a side dish ever since!

We always have an abundance of squash and tomatoes in the summer, and it’s so quick to slice them up, layer them in a dish, and bake them with a little bit of parmesan cheese!

It’s made with only 6 simple ingredients and allows the summer veggies to shine! For another tomato recipe, try our Tomato Sauce with Fresh Tomatoes.

If you’re looking for other healthy zucchini recipes – check out this Zucchini Bread, Zucchini Lasagna, or these 30 Healthy Zucchini Recipes!

tyler’s top tip for zucchini tomato bake

  • The key to cooking zucchini so that it doesn’t get soggy is not to overcook it! Zucchini goes from being firm and delicious to a ball of mush in a matter of minutes!
  • When cooking zucchini, make sure you watch it closely towards the end. It cooks very fast. The best thing to do is to set a timer!

Ingredients

Ingredients of Zucchini Tomato Bake Casserole in small white bowls on a grey background

Substitutions

Veggies: You can use all green or all yellow squash in this recipe. You can also add chopped onion.

Chopped Veggies: You can chop all of the vegetables in pieces and mix them up in a bowl if you don’t want to arrange them. Chop in 1 inch cubes. 

Fresh Basil: If you don’t have fresh basil, you can substitute 1/2 tablespoon dried basil

Oil: Olive oil is the best option for this recipe, but avocado oil will also work!

Mozzarella: We like to add 1/4 cup shredded mozzarella cheese to this recipe for even more cheesiness!

Vegan: To make this vegan use vegan parmesan, or omit cheese completely

Bread crumbs: This is delicious with 1/8 cup of panko breadcrumbs sprinkled on top!

How to make Healthy Zucchini Tomato Bake:

Zucchini, squash and tomatoes in a cast iron skillet before baking
  1. First – slice your zucchini + tomatoes about 1/4 inch thick. Then, layer them in a pan. You can make a pattern like I did, or just toss them in there!
Herbs, olive oil and cheese being mixed together to be poured on top of zucchini bake
  1. Stir together your parmesan cheese, olive oil and herbs.
Zucchini Tomato Bake before being put in the oven
  1. Sprinkle over veggies.
A close up of Zucchini Bake in a pan fresh out of the oven.
  1. Bake in the oven and you’re done! 

It’s seriously so delicious and simple!

If your garden is over flowing, you just need a quick summer side dish, or you’re looking for an easy way to get in veggies this winter – this Healthy Zucchini Tomato Bake recipe for you!

What to Serve with Zucchini Tomato Bake:

This recipe is so versatile, it really goes with anything! Here are our favorite things to serve with this zucchini bake:

a spoon taking a scoop out of zucchini bake

Storing:

Making ahead: You can make this up to 24 hours in advance and bake when you’re ready to eat.

Storing: You can store this in the refrigerator for up to 5 days

Freezing: We don’t recommend freezing this dish. Frozen veggies can get very watery.

A close up of Zucchini Tomato Bake in a cast iron skillet
An overheat shot of Healthy Zucchini Tomato Bake in a cast iron skillet

Healthy Zucchini Tomato Bake

Recipe by: Liz Marino
4.56 from 49 votes
This Healthy Zucchini Tomato Bake recipe is an easy way to use up all your summer vegetables. Fresh, healthy and full of flavor- it’s the perfect side dish!
Prep Time : 5 minutes
Cook Time : 25 minutes
Total Time : 30 minutes
Serves : 6 servings
(hover over # to adjust)

Ingredients

  • 1 cup zucchini sliced
  • 1 cup yellow squash sliced
  • 2 cups tomatoes sliced
  • 2 tablespoons basil fresh, chopped
  • 2 tablespoons olive oil
  • 1/4 cup grated Parmesan cheese
  • 1/2 teaspoon salt
  • 1/2 teaspoon black pepper

Instructions

  1. Preheat oven to 350 and spray a pie dish or 8×8 baking dish with oil
  2. Slice the tomato and squash into 1/4 inch thick slices.
  3. Layer the squash and tomato in a pattern, side by side until the pan is full
  4. Whisk together chopped basil, olive oil, salt, pepper and Parmesan cheese. Pour it over vegetable mixture until covered.
  5. Bake at 350 for 20-25 minutes until vegetables are slightly tender. If you like your vegetables cooked well, keep the dish in the oven for an extra 5-10 minutes. 
  6. Optional: Top with additional parmesan and optional hot pepper flakes

Notes

Substitutions for this recipe:
  • You can use all green or all yellow squash in this recipe
  • You can chop all of the vegetables in pieces and mix them up in a bowl if you don’t want to arrange them. Chop in 1 inch cubes. 

Nutrition Facts

Serving: 1cup | Calories: 75kcal | Carbohydrates: 4g | Protein: 3g | Fat: 6g | Saturated Fat: 1g | Cholesterol: 4mg | Sodium: 262mg | Potassium: 230mg | Fiber: 1g | Sugar: 2g | Vitamin A: 565IU | Vitamin C: 14mg | Calcium: 59mg | Iron: 1mg
Course: Side Dish
Cuisine: American
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4.56 from 49 votes (25 ratings without comment)

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Recipe Rating




53 Comments

  1. 5 stars
    Made this a couple times now and always enjoy it. Thanks for this quick and healthy recipe!

  2. 3 stars
    This turned out to be very “watery”

  3. 5 stars
    This was delicious! I chopped the zucchini and used chopped grape tomatoes because that’s what I had. It was a great side dish to pork chops – very summery.

  4. George Medina says:

    5 stars
    Outstanding dish! Great for using the extra tomatoes and zucchini from my garden.

  5. 3 stars
    Even though I used exact measurements, I feel like it could’ve used more of the mixture as it only covered some of the top layer. I may give it another try.

    1. The Clean Eating Couple says:

      Did you use the right size dish? Not sure what you mean here by ‘top layer’

      1. Yes I used a pie dish. And I overlapped the squash and tomatoes a little. There wasn’t enough mixture to cover everything but I’ll give it another try!

        1. The Clean Eating Couple says:

          There shouldn’t be two layers, just one to fill the dish!