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Jalapeño Popper Mac and Cheese

October 28, 2024

This jalapeño popper mac and cheese recipe is two of our favorite creamy, indulgent comfort foods, all smooshed together! Easy to make ahead of time, it’s a versatile family favorite!

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jalapeño popper mac and cheese made with cream cheese, cheddar, pepper jack, bacon and jalapeños, topped with panko
Photography by Gayle McLeod

We’ve been looking for a reason to share this creamy, cozy baked jalapeno popper mac and cheese recipe for a while, and these cooler days are exactly the excuse we’ve been waiting for. Nothing says “warm up on my couch in sweatpants while we watch football” quite like the indulgence of a Classic Baked Mac and Cheese, except for maybe this creamy jalapeño popper mac and cheese. Creamy and loaded with three kinds of cheese, jalapeños, and topped with a crispy panko topping, it’s easy, adaptable and ideal for making ahead of time if you need to.

macaroni, bacon, jalapeño, butter, flour, milk, cream cheese, cheddar and pepper jack in prep bowls

Jalapeño Popper Mac & Cheese Ingredients

  • Macaroni: Classic elbow macaroni is our favorite pasta for mac and cheese recipes, but if you want to have a little fun, cavatappi would work, too!

  • Shredded cheeses: A combo for cheddar and pepper Jack cheese makes this recipe perfectly cheesy and adds to the spice kick. Don’t use pre-shredded cheeses for this one (we know, sorry!) because they will not melt into the cream sauce as well as ones you grate yourself. You can DIY with a box grater or the grating attachment of your food processor.

  • Cream cheese: Creamy creamy creamy; that’s what we want our mac and cheese be. In this case, we’re using cream cheese as a call back to those delicious Jalapeño Poppers that inspired it.

  • Jalapeño peppers: When you scrape the seeds out, you’re basically taking away a lot of the peppers’ heat level, so don’t skip that step! Also don’t rub your eyes after you’ve been working with jalapeños — definitely give those hands a good wash.

  • Butter: Salted butter is our pick here.

  • Flour: Regular all-purpose flour

  • Milk: Whole milk, please. This is no time for skim!

  • Garlic powder: Gotta have some garlic in the mix.

  • Bacon: Cook some bacon in the oven (our favorite trick!) and crumble it in.

  • Panko breadcrumbs: For that crispy topping that’s the BEST part of every baked mac and cheese recipe.

flour being sprinkled into a pan of melted butter
milk being whisked into a skillet with butter and flour

How to Make Jalapeño Popper Mac & Cheese

  1. Cook the macaroni or pasta just until they’re al dente. Drain them, and put them in a prepped baking dish.

  2. Make a quick, basic roux with the butter and flour, then slowly whisk in the milk. This will be the base for the creamy cheesy sauce that the macaroni will bake in.

  3. Stir in the cream cheese and seasonings. Then whisk in the grated pepper Jack and cheddar cheeses. Then add bacon and jalapeños. Adding everything gradually is the key to a creamy cheese sauce.

  4. Bring it all together! Pour that gorgeous creamy mac and cheese sauce over the noodles and stir gently until every last noodle is coated.

  5. Toast the panko in a little butter, because why not add just a little more butter?

  6. Top the jalapeño popper macaroni and cheese with more cheese, panko and jalapeño slices.

  7. Bake for about 30-40 minutes, until it’s all golden and bubbling.

salt, garlic, pepper and cream cheese being added to a skillet with a rue made of butter and flour
cheese sauce in a pot being made with butter, flour, cream cheese, cheddar and pepper jack
mixing cooked chopped bacon and minced jalapeños into cheese sauce in a skillet
cooked macaroni noodles being stirred into jalapeño popper cheese sauce made with cream cheese, cheddar and pepper jack

Tips For The Best Mac and Cheese

If you’re making baked mac and cheese with jalapeño, the key to success is making sure there’s not just *enough* creamy, cheesy sauce, but that there is, in fact, extra sauce. As the macaroni and cheese bakes, the pasta absorbs a lot of the cheese sauce. When you set out to make this recipe, it might initially look like you’ve got an unbalanced noodle-to-sauce ratio, but we’re going to ask you to just trust us on this one. It’ll turn out perfectly—promise!

panko being browned in butter in a skillet
jalapeño popper mac and cheese made with cream cheese, cheddar, pepper jack & bacon with panko ready for the oven

Variations To Try

Our baked jalapeño mac and cheese is super versatile! Here are a few easy modifications:

  • Want ultra-spicy mac and cheese? Add more jalapeño!

  • Need it to be mild? Only use one jalapeño.

  • If you’re serving a crowd with vegetarians in the mix, leave the bacon out, or serve bacon crumbles on the side.

  • Try adding a little blue cheese to the cheeses (just a little will go a long way) for an even sharper cheesy flavor.

jalapeño popper mac and cheese made with cream cheese, cheddar, pepper jack, bacon and jalapeños, topped with panko

How To Store Leftover Mac & Cheese

  • Store any leftovers in the fridge for up to 5 days or….

  • Yes, you can freeze mac and cheese! Bake it, let it cool, cover it tightly and store it in the freezer for up to 3 months.

jalapeño popper mac and cheese made with cream cheese, cheddar, pepper jack, bacon and jalapeños, topped with panko
jalapeño popper mac and cheese made with cream cheese, cheddar, pepper jack, bacon and jalapeños, topped with panko

So, Did Everyone Love It?

For more recipe inspiration, follow us on Facebook, Instagram, TikTok and Pinterest or order our cookbook. We love when you share your meals. Tag us on Instagram using #themodernproper, and we’d love to hear what you think of this recipe in the comments below. Happy cooking!

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Jalapeño Popper Mac and Cheese Recipe

  • Serves:  10
  • Prep Time:  10 min
  • Cook Time:  45 min
  • Calories:  886

Ingredients

  • 1 pound elbow macaroni
  • 1 cup salted butter
  • ⅓ cup all-purpose flour
  • 5 cups whole milk
  • 2 teaspoons kosher salt
  • 2 teaspoons garlic powder
  • ½ teaspoon freshly cracked black pepper
  • 8 ounces cream cheese, cubed
  • 3 cups shredded medium cheddar cheese
  • 4 cups shredded pepper jack cheese
  • 12 ounces bacon, cooked, chopped
  • 4 jalapeños, 3 seeded and finely chopped, 1 sliced (for topping)
  • 1 cup panko breadcrumbs

Method

  1. Bring a large pot of salted water to a boil over high heat. Add the pasta and cook until al dente according to package instructions. Drain.

    macaroni, bacon, jalapeño, butter, flour, milk, cream cheese, cheddar and pepper jack in prep bowls
  2. Meanwhile, preheat the oven to 375°F degrees with a rack in the center position. Spray a 9x13-inch baking dish with cooking spray.

    flour being sprinkled into a pan of melted butter
  3. Add ½ cup of the butter to a large saucepan over medium heat. Cook, stirring occasionally until melted. Sprinkle the flour over the butter and cook, whisking constantly until flour is fully absorbed and a thick paste is formed, 1 minute.

    milk being whisked into a skillet with butter and flour
  4. Slowly whisk in the milk one cup at a time. Cook, stirring occasionally until the sauce has thickened, 5 minutes. Stir in the salt, garlic powder, pepper and cream cheese. Cook, stirring, until the cream cheese is fully incorporated. Stir in 2½ cheddar cheese and 3½ cups pepper jack cheese, until melted.

    cheese sauce in a pot being made with butter, flour, cream cheese, cheddar and pepper jack
  5. Reserve ¼ cup of the bacon for garnishing. Stir the remaining bacon and chopped jalapeños into the cheese sauce. Add the cooked noodles to the prepared baking dish. Pour the cheese sauce over the noodles and stir until fully incorporated.

    cooked macaroni noodles being stirred into jalapeño popper cheese sauce made with cream cheese, cheddar and pepper jack
  6. Add the remaining ½ cup of butter to a small skillet set over medium heat. Once melted, remove from heat and stir in the panko breadcrumbs, until fully coated.

    panko being browned in butter in a skillet
  7. Sprinkle the macaroni and cheese evenly with the remaining ½ cup cheddar cheese and ½ cup monterey jack. Top evenly with the sliced jalapeno. Sprinkle evenly with the panko breadcrumbs.

    jalapeño popper mac and cheese made with cream cheese, cheddar, pepper jack & bacon with panko ready for the oven
  8. Bake until panko is golden brown, the cheese is melted and the sauce is bubbling, 30-40 minutes.

    jalapeño popper mac and cheese made with cream cheese, cheddar, pepper jack, bacon and jalapeños, topped with panko
  9. Top with reserved bacon. Serve warm.

    jalapeño popper mac and cheese made with cream cheese, cheddar, pepper jack, bacon and jalapeños, topped with panko

Nutrition Info

  • Per Serving
  • Amount
  • Calories 886
  • Protein 34 g
  • Carbohydrates 35 g
  • Total Fat 72 g
  • Dietary Fiber 2 g
  • Cholesterol 198 mg
  • sodium 1402 mg
  • Total Sugars 7 g

Jalapeño Popper Mac and Cheese

Questions & Reviews

Join the discussion below.

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  • Rachel

    Are you able to prep this the night before minus the final toppings (breadcrumbs, sliced jalapenos, etc.), add those the next morning, and then bake? Or do you recommend not letting it sit in the fridge? Thanks for your help!

    Yes, that should work just fine! Hope you enjoy Rachel!

  • Olivia

    Is there another pepper you can recommend for the spice-averse? I would love to make this recipe as is, but I have a young child whos not too crazy about spice (Im working on it!)

    You could leave them our or you could try anaheim peppers. Hope you enjoy!

  • PARTHAVI

    Is there any substitute for bacon?

    You can just leave it out.

  • Ana

    Can you make ahead and freeze this??

    We haven't tried but that should work just fine! Hope you enjoy Ana.

  • Dana

    Pretty sure I just drooled in my phone looking at this recipe!

    Haha.

  • Juli

    WOW! What a fantastic recipe. It really is like jalapeno poppers with pasta. I did not bake it due to personal preferencr and it still turned out amazing. This one is a keeper.

    Thanks Juli, we are so glad you loved it!

  • jenn

    Oh my heavens this was good.

    Thanks Jenn, we are so glad you loved it!