Cheesy Pesto Zucchini Boats

Featured in: Warm Baked Recipes

These zucchini halves are delicately hollowed and filled with a colorful blend of basil pesto, cherry tomatoes, red onion, garlic, and creamy cheeses. Topped with mozzarella and Parmesan, the boats bake until tender and bubbling with melted cheese. Optional additions like pine nuts or walnuts add texture, while serving suggestions include crisp salads and crusty bread. Simple to prepare and rich in Mediterranean flavors, this dish brings satisfying comfort with a vegetarian twist.

Updated on Mon, 22 Dec 2025 11:36:00 GMT
Golden cheesy pesto zucchini boats are baked until tender perfection, ready for a delicious vegetarian dinner. Pin It
Golden cheesy pesto zucchini boats are baked until tender perfection, ready for a delicious vegetarian dinner. | juniperbite.com

Last summer, my neighbor handed me five enormous zucchini from her garden with a laugh and said, good luck. I stood in my kitchen staring at them, wondering how many loaves of zucchini bread one person could reasonably eat. Then I remembered a dish my cousin made years ago, boats filled with pesto and cheese, and suddenly those giant squash didn't seem so daunting. I grabbed my sharpest knife and got to work.

I made these for a potluck once, and my friend who claimed she hated zucchini came back for seconds. She kept asking what was in them, convinced there was some secret ingredient. It was just good pesto, ripe tomatoes, and enough cheese to make anything taste like comfort. That night I learned that presentation matters, because calling something a boat makes it infinitely more appealing than calling it stuffed squash.

Ingredients

  • Zucchini: Look for medium ones that are firm and not too watery inside, because the giant ones tend to be bland and seedy.
  • Cherry tomatoes: Their sweetness balances the earthiness of the zucchini, and halving them releases just enough juice to keep the filling moist.
  • Red onion: A little goes a long way, adding sharpness without overpowering the pesto.
  • Garlic: Fresh minced garlic makes all the difference, but if you're tired, jarred works fine.
  • Basil pesto: Homemade is lovely, but a good store bought jar will save you time and still taste bright and herby.
  • Quinoa or rice: This turns the boats into a full meal, though you can skip it if you want something lighter.
  • Parmesan cheese: The real stuff, freshly grated, adds a nutty depth that pre shredded just can't match.
  • Mozzarella cheese: Low moisture mozzarella melts better and won't make your boats soggy.
  • Ricotta or cottage cheese: Either works, ricotta is creamier, cottage cheese adds a bit more texture.
  • Pine nuts or walnuts: Toasting them first brings out their oils and makes them taste richer.
  • Olive oil: A good drizzle before baking keeps the zucchini from drying out.

Instructions

Prep the oven and dish:
Set your oven to 400 degrees and get your baking dish ready so you're not scrambling later. Parchment paper makes cleanup easier, but a little olive oil works too.
Hollow out the zucchini:
Slice each one lengthwise and use a spoon to scoop out the seedy center, leaving a sturdy shell. Don't toss that flesh, you'll need it for the filling.
Season the boats:
Arrange them cut side up, brush with olive oil, and sprinkle with salt and pepper. This step adds flavor to the zucchini itself, not just the filling.
Make the filling:
Chop the reserved zucchini flesh and mix it with tomatoes, onion, garlic, pesto, quinoa or rice if using, ricotta or cottage cheese, and half the Parmesan. Taste it and adjust the salt and pepper.
Stuff and top:
Spoon the filling into each boat, then cover with mozzarella and the rest of the Parmesan. Scatter nuts on top if you like a little crunch.
Bake until golden:
Slide the dish into the oven and bake for 20 to 25 minutes. You'll know they're done when the cheese is bubbly and the zucchini yields easily to a fork.
Cool and serve:
Let them sit for a few minutes so the filling sets and you don't burn your tongue. Fresh basil on top makes them look restaurant pretty.
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One evening I served these with a simple arugula salad and a glass of cold white wine, and it felt like I was eating at a little cafe in Italy instead of my cramped apartment kitchen. My partner said it tasted like summer, which is maybe the best compliment a dish can get. That's when I realized these boats weren't just a way to use up zucchini, they were a reason to slow down and enjoy dinner.

Make It Your Own

I've added handfuls of spinach when I had some wilting in the fridge, and once I threw in chopped kalamata olives because I was craving something briny. You can also swap the pesto for sun dried tomato spread or even a spoonful of marinara if that's what you have. The beauty of this recipe is that it's forgiving, so trust your instincts and use what tastes good to you.

Storage and Reheating

These keep well in the fridge for up to three days, covered tightly. I've reheated them in the oven at 350 degrees for about 10 minutes, which crisps the cheese back up. Microwaving works in a pinch, but the texture won't be as nice. You can also assemble the boats in advance and bake them fresh when you're ready to eat.

Serving Suggestions

I like to serve these with crusty bread to soak up any pesto that pools in the dish, and a bright green salad with lemon vinaigrette cuts through the richness. If you want to make it a bigger spread, roasted potatoes or a simple pasta on the side rounds things out nicely.

  • Add a squeeze of fresh lemon juice over the top before serving for a pop of brightness.
  • If you're feeding kids, go easy on the onion and garlic so they'll actually eat it.
  • Leftovers are great chopped up and stirred into scrambled eggs the next morning.
A close-up shot of baked cheesy pesto zucchini boats, brimming with colorful vegetables and melted cheese. Pin It
A close-up shot of baked cheesy pesto zucchini boats, brimming with colorful vegetables and melted cheese. | juniperbite.com

These boats have become my go to when I want something that feels special but doesn't require much fuss. I hope they find a place in your kitchen too.

Questions About This Recipe

Can I make this dish vegan?

Yes, substitute plant-based cheeses for the Parmesan, mozzarella, and ricotta to create a vegan-friendly version without sacrificing creaminess.

What’s the best way to scoop zucchini for filling?

Slice zucchini lengthwise and carefully use a spoon to remove the center flesh, leaving about a 1/4-inch thick shell for stability.

Can I add grains for heartiness?

Cooked quinoa or rice can be mixed into the filling to add texture and bulk, enhancing the dish’s satisfying quality.

How can I enhance flavors in the filling?

Adding chopped spinach, bell peppers, or olives provides an extra layer of vibrant taste and nutrition.

What cheese alternatives can I use if unavailable?

If fresh cheeses are not accessible, consider aged hard cheeses for Parmesan and shredded cheeses for mozzarella to maintain the flavor profile.

Cheesy Pesto Zucchini Boats

Tender zucchini filled with basil pesto, veggies, and topped with melted golden cheese.

Prep Time
20 minutes
Cook Time
25 minutes
Total Duration
45 minutes
Juniper Bite Chloe Fischer

Dish Type Warm Baked Recipes

Skill Level Easy

Cuisine Mediterranean

Serves 4 Number of Servings

Dietary Info Vegetarian-Friendly, Wheat-Free

What You’ll Need

Vegetables

01 4 medium zucchini
02 1 cup cherry tomatoes, halved
03 1/2 small red onion, finely chopped
04 1 clove garlic, minced

Pesto & Filling

01 1/3 cup basil pesto (store-bought or homemade)
02 1/2 cup cooked quinoa or rice (optional)
03 1/4 cup grated Parmesan cheese
04 1/2 cup shredded mozzarella cheese
05 1/2 cup ricotta or cottage cheese
06 2 tbsp pine nuts or chopped walnuts (optional)
07 Salt and pepper, to taste
08 Olive oil, for drizzling

Directions

Step 01

Preheat oven: Preheat the oven to 400°F. Line a baking dish with parchment paper or lightly grease it.

Step 02

Prepare zucchini: Slice zucchini in half lengthwise and carefully scoop out the center flesh, leaving about a 1/4-inch shell. Finely chop the reserved flesh.

Step 03

Arrange and season zucchini: Place zucchini halves cut side up in the prepared baking dish. Brush lightly with olive oil and season with salt and pepper.

Step 04

Combine filling ingredients: In a bowl, mix chopped zucchini flesh, cherry tomatoes, red onion, garlic, pesto, cooked quinoa or rice if using, ricotta or cottage cheese, and half of the Parmesan. Season with salt and pepper.

Step 05

Fill zucchini boats: Spoon the filling evenly into the zucchini shells. Top with shredded mozzarella, sprinkle with remaining Parmesan, and add pine nuts or walnuts if desired.

Step 06

Bake: Bake for 20 to 25 minutes until the zucchini is tender and the cheese is melted and golden.

Step 07

Serve: Allow to rest for a few minutes before serving. Optionally garnish with fresh basil leaves.

Kitchen Gear Needed

  • Chef's knife
  • Spoon for scooping
  • Mixing bowl
  • Baking dish
  • Oven

Allergen Details

Always check what goes in for allergens, and talk to your doctor if you’re unsure.
  • Contains dairy from Parmesan, mozzarella, and ricotta or cottage cheese.
  • May contain tree nuts (pine nuts or walnuts) if used.
  • Gluten-free when using certified gluten-free pesto and quinoa or rice.

Nutrition Information (each serving)

This info’s just a guide, not medical advice.
  • Calories: 255
  • Fats: 15 g
  • Carbohydrates: 16 g
  • Proteins: 13 g