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Three Cheese Manicotti

Your new favorite dish comes with manicotti noodles stuffed with 3 kinds of cheese then covered in marinara sauce and more cheese! Baked until bubbly, this easy Italian-inspired casserole is ready in under 1 hour!

Baked cheese manicotti in a baking dish.
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Italian-Inspired Comfort Food

Three cheese manicotti is a baked stuffed pasta dish that I like to think of as a hearty casserole. It’s the ultimate comfort food that’s easy to make ahead and freeze, bring to a potluck, or fill the freezer of a friend in need!

It may not be as authentic as you’d get traveling overseas, but I can assure you this manicotti is just as flavorful thanks to my homemade marinara sauce and Italian seasoning blend. This recipe for homemade manicotti is accessible to everyone and just as delicious as anything you’d find at your favorite Italian restaurant!

Perfect for a cozy meal through the winter months and is a quick flavorful meal for busy weeknights. Complete this hearty meal with garlic bread or easy breadsticks and a simple chopped salad for a dinner everyone will love!

What is Manicotti?

Manicotti is an Italian-American pasta dish made from long tubes of cooked pasta, translated to mean “little sleeves” that are stuffed with cheese, usually a seasoned ricotta blend, spinach, and sometimes meat. They are then smothered with a marinara sauce, béchamel sauce, or just a sprinkling of cheese and baked!

The filling of the manicotti shells in this recipe is creamy and fluffy and made with 3 kinds of cheese, similar to ricotta stuffed shells. It’s then smothered in a tasty sauce, topped with mozzarella then baked until golden and bubbly.

We’re making a meatless version with plenty of ways listed below to switch things up.

Why This Recipe Works

  • It’s stuffed! Who doesn’t love a stuffed pasta dish?! Baked ziti has always been a hit around here, but when I introduced my kids to stuffed pasta, it became an instant favorite.
  • Simple ingredients. There are ways to make as much of it from scratch as you like, but you can always take some trusted shortcuts like using store-bought sauce to make it even easier.
  • Make ahead and freezer friendly. Assemble the manicotti and freeze it for months! When you’re ready to bake it, just pop it in the oven.

Ingredient Notes

Find the full printable recipe below.

Cheese manicotti ingredients on marble counter.
  • Manicotti noodles: These are large tube-shaped noodles with ridges. If you can’t find any, use lasagna noodles. Boil them as per package directions and place the filling on one end of the noodle and roll lit up. 
  • Mozzarella cheese: Use freshly grated mozzarella if you can. In other words, grate it yourself from a soft mozzarella ball. It melts better, tastes better, and since you want the flavors of the cheese to shine, using good quality cheese is worth it.
  • Marinara sauce: I like to use a homemade sauce, but if you’re looking for an easier way I would suggest the Kirkland brand from Costco.

Variations

I like to keep my manicotti simple with the blend of 3 kinds of cheese and a bit of seasoning but there are plenty of ways add tasty fillings to your manicotti!
Here are some additional ingredients you can use, including meat, vegetables, and seasoning:

  • Spinach
  • Mushrooms
  • Ground beef
  • Italian sausage
  • Shredded chicken
  • Roasted garlic
  • Oregano
  • Fresh parsley
  • Onion
  • Red pepper flakes
  • Basil
  • Onion powder
  • Garlic powder
  • Nutmeg

How to Make Manicotti

Step by step collage making cheese manicotti.
  1. Make the filling. When making the filling you can either mix everything in a large bowl or directly in a Ziploc bag. To either one, add the ricotta cheese, mozzarella, Parmesan, eggs, Italian seasoning, salt, and pepper and mix until combined. If you’ve used a bowl, transfer it over to the zip loc bag now. 
  2. Stuff the noodles. Snip one corner of the bag and squeeze the filling out into the inside of the cooked manicotti shells.
  3. Lay the sauce and noodles down. Spread 1/2 of the marinara sauce onto the baking dish and place the stuffed noodles on top of the sauce in an even layer. 
  4. Add toppings and bake. Pour any remaining sauce over the noodles and sprinkle with the remaining cheese. Cover the casserole dish with foil and bake the manicotti for 20 minutes. Remove the foil and bake for 5-10 minutes more until the cheese is bubbly. Let it sit for a few minutes and enjoy garnished with fresh basil!

Expert Tips

  • If you don’t have any Ziploc bags, you can spoon the filling into the shell. It’s just a little messier this way.
  • Cook the noodles to al dente. They will continue to cook while baking, so you don’t want the manicotti overcooked.
  • Bring it to room temperature. If you’ve made the dish ahead of time, take it out of the fridge and bring it to room temperature about 40 minutes before baking. 
  • Serving size. When serving a crowd, I would make enough to give everyone two. One is enough for most people, but it’s always good to have extra.
Three cheese manicotti with marinara and basil on top.

Recipe FAQs

What goes with 3 cheese manicotti?

Since this dish is saucy, cheesy, and a bit heavier, a crisp light salad is a great pairing. Salads like this wedge saladMediterranean quinoa salad, or an easy chopped salad. An easy ratatouille would also be great.

What is the difference between manicotti and cannelloni?

While manicotti is Italian-inspired, it’s an American version of the Italian Cannelloni, which uses similar tubed pasta, without ridges, and is stuffed with ground meat, cheese, and sauce.

How do you keep manicotti from flattening?

The trick is to make sure you’re not overcooking them! Only cook them to al dente and even less than what the box states. That way they’ll hold their shape nicely.

How much in advance can I make manicotti?

You can assemble it up to 2 days ahead of time and bake it when you’re ready. Or you can wrap it up and transfer it to an airtight container and keep it frozen for up to 3 months. Thaw in the fridge overnight or bake from frozen for an extra 10-15 minutes.

How to store?

Keep any leftovers covered in an airtight container for up to 4 days in the refrigerator. Reheat in the microwave until warm.

Three cheese manicotti on a white plate.

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Three cheese manicotti on a white plate.

Cheese Manicotti

5 from 5 votes
Author: Jamielyn Nye
Your new favorite dish comes with manicotti noodles stuffed with 3 kinds of cheese then covered in marinara sauce and more cheese! Baked until bubbly, this easy Italian-inspired casserole is ready in under 1 hour!
Prep Time: 20 mins
Cook Time: 25 mins
Total Time: 45 mins
Servings: 8

Ingredients 

  • 10 ounces manicotti noodles
  • 3 cups ricotta cheese
  • 1 1/2 cups grated fresh mozzarella cheese , divided
  • 3/4 cup grated parmesan cheese , plus more if desired
  • 2 large eggs , beaten
  • 2 teaspoons Italian seasoning
  • 1/2 teaspoon Kosher salt
  • 1/4 teaspoon ground black pepper
  • 24 ounces marinara
  • Chopped fresh basil

Instructions

  • Preheat the oven to 350°F. Spray a 9×13-inch baking dish with nonstick spray.
  • Boil the manicotti noodles according to package directions.
  • In a large zip-top bag, add the ricotta, 1 cup mozzarella, 1/2 cup parmesan, eggs, Italian seasoning, salt, and pepper. Mix together until combined.
  • Snip one corner of the bag and pipe the filling inside the cooked noodles.
  • Spread 1/2 of the marinara onto the bottom of the baking dish. Place the noodles on top of the sauce. Spread the remaining marinara over the top. and sprinkle with the remaining 1/2 cup mozzarella. Cover with foil and bake 20 minutes.
  • Remove foil and bake an additional 5 to 10 minutes, or until the cheese is bubbly. Remove from oven and let sit a few minutes before serving. Top with fresh basil. Serve while hot.

Notes

Make-ahead: This dish can be made 24 hours in advance before baking. You can also place in a foil pan and freeze until ready to bake (up to 3 months). 
Variation: This dish tastes great with 1 cup shredded chicken and/or 1 cup chopped spinach mixed in with the cheese mixture. 
Noodles: If you can’t find manicotta, you could also use cooked flat lasagna noodles. Simply place 1/4 cup filling on one end and roll up. 
Homemade marinara: Check out my homemade marinara recipe. I prefer Kirkland brand if I’m not making homemade. 

Nutrition

Calories: 434kcal | Carbohydrates: 36g | Protein: 25g | Fat: 21g | Saturated Fat: 12g | Polyunsaturated Fat: 1g | Monounsaturated Fat: 6g | Trans Fat: 0.01g | Cholesterol: 118mg | Sodium: 942mg | Potassium: 486mg | Fiber: 3g | Sugar: 5g | Vitamin A: 1078IU | Vitamin C: 6mg | Calcium: 415mg | Iron: 2mg

Nutrition provided is an estimate. It will vary based on specific ingredients used.

Course: Main Course
Cuisine: Italian
Diet: Vegetarian

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