Keto Deep Dish Pizza

by Clean Keto Lifestyle

Keto Deep Dish Pizza does exist and couldn't be more delicious. Stuffed with melty cheese, tomatoes, and bacon, this Chicago-style pizza is the perfect dinner for the whole family! It is also keto, low-carb, grain-free, and gluten-free.

keto deep dish pizza slices

Keto Deep Dish Pizza

If  you have never enjoyed a deep dish pizza, you are in for a treat.

Originated in Chicago, this pizza is a super-sized version of the standard pizza you are used to.

The key is baking this pizza is a deep pan or skillet to create a crust that surrounds the whole pizza. Then, you fill up the crust with cheese, tomato sauce, and your favorite toppings.

It is truly divine and we can't wait for you to try it!

keto chicago style pizza

Check Out Our Most Recent Video

It's All About The Crust

The key to a great deep dish pizza is the the crust. It is what sets it apart from its traditional counterparts.

This is where we had to get creative and come up with a low-carb version that is grain-free and gluten-free. 

And we figured it out!  Our yeast-based dough is super soft and fluffs up nicely.

The key to this crust is our secret ingredient – whey protein isolate.

Since almond flour is heavier due to the higher moisture content, using whey protein isolate will help to balance the heaviness out and create a lighter crust.

bacon pizza

What Is The Best Deep Dish Pan To Use

When making a Chicago-style pizza, you need to make sure you bake it in an deep dish. Hence the name!

We recommend using one of the following:

Slice of low-carb pizza

What Are The Best Keto Toppings

When it comes to this pizza, the combinations are endless.  We like to use a tomato-based sauce and then mix and match the meat and veggies.

We love the salty combination of bacon and ham in this version of our deep dish pizza. But feel free to use whatever meats you have on hand. 

Pepperoni, sausage, and even steak would be great substitutes.

keto deep dish pizza slices

When it comes to cheeses, we love the classic combination of mozzarella and Parmesan. We recommend opting for cheeses that melt well.

As for veggies, all the classics are keto:

  • Onions
  • Green pepper
  • Tomatoes
  • Banana peppers
  • Jalapenos
  • Olives

Just make sure to soften them in a skillet before adding to the crust.

keto deep dish pizza with melted cheese

How to Make Keto Deep Dish Pizza

The full instructions are detailed in the recipe card at the end of this post.

But we wanted t give you step-by-step instructions, so you know exactly how to make this low-carb pizza.

Let's review the method now!

almond fflour

Step #1 – Gather Your Ingredients

We are making our keto deep dish crust from scratch, so measure out all the ingredients ahead of time.

You will first start on the proofing your yeast. 

Combine the yeast, honey, and water in a medium bowl and stir.  Allow to rest for 10-15 minutes or until the mixture becomes frothy.

yeast rising in a bowl

Step #2 – Make The Dough

Once your yeast mixture is fluffy, then grab your stand mixer and attach the dough hook.

We recommend using a stand mixer with a hook attachment for the dough, but you can also mix by hand if need be.

Add the almond flour, coconut flour, whey protein isolate, psyllium husk powder, baking powder, and salt in your mixing bowl. Mix until fully incorporated.

Next, add the olive oil and yeast mixture to the bowl and mix until combined and a dough forms like the picture below.

ktichen aid hook attachment

Step #3 – Let Your Dough Rise

Using your hands, form the dough into a ball in the bowl and rub olive oil all around the outsides. 

Keep the dough ball in the mixing bowl,

Cover with plastic wrap and place in a warm area to rise for 1 hour.

pizza dough ball

Step #4 – Par Bake Your Crust

Par Baking” simply means partially baking.  

In this keto deep dish recipe,  par-baking your crust before you add the toppings will ensure that the bottom of your crust won't be soggy.

Heat your oven to 400°F.Rub some olive oil on your hands and spread the dough out into your pan. 

Make sure the dough completely covers the bottom of the pan and also push it up the sides so that the dough. You want your dough to be no more than 1/4-inch thick.

Bake for 5 minutes in the oven and remove.

deep dish crust

Step #5 – Add Your Toppings

In this recipe, we made a quick tomato sauce using onions, garlic, a can of diced tomatoes, and dried spices.

Just saute your onions and garlic in olive oil, add in your diced tomatoes and let reduce down to almost a jam consistency.

To save on time, you can replace the garlic, onions, herbs, and canned tomatoes with your favorite low-carb tomato or marinara sauce. We like Primal Kitchen or Rao's brand.

Now you are ready to assemble your pizza.  First, place half of your mozzarella cheese in the par-baked crust.

cheese in pizza crust

Next, add half of the cooked meat of your choice (we made ham and bacon), and then half of the tomato sauce mixture. 

Layer the remaining meat on top of the tomatoes, followed by the remaining cheese and the remaining tomatoes. 

bacon and sausage pizza toppings

Step #6 – Bake Your Pizza

Sprinkle your deep dish pizza with the grated Parmesan, then put back in the oven.

Bake for 10-12 minutes or until the cheese is melted, the inside is hot, and the crust has turned golden brown.

Serve while hot!

whole keto pizza in a pan

Keto Deep Dish Pizza Cooking Tips

  • We recommend using a stand mixer with a hook attachment for the dough, but you can also mix by hand.
  • Activating the yeast is key for this dough.  Your yeast mixture should be very frothy.  If it isn't we recommend dumping it and starting again.
  • We love to set our oven to a low temperature and let our dough sit covered on the stove towards the back where the heat escapes.  Placing your dough in a warm place will help it to rise.
  • Don't be afraid to spread your dough out thinly in your pan or skillet.  The crust will fluff and thicken considerably in the oven so you really want to make sure your dough is no more than 1/4-inch thick in the pan.

whole deep dish pizza

Looking for More Italian-inspired Keto Recipes?

Check out these fan-favorites:

keto deep dish


Like what you see? Follow us on Instagram and Facebook! Love this recipe? Hit the Pin button below and share it with your friends! Make sure you don’t miss new recipes by getting email updates!



We Can't Wait To See You Try It!

We love seeing our recipes come to life!! We can’t wait to see how you make these and loving seeing each person's unique spin on it! Tag us on Instagram @cleanketolifestyle or use the hashtag #CKLrecipe!

Make Sure To Save This Recipe or Share It!

0 comment

You may also like

Leave a Comment

This website uses cookies to improve your experience. If you continue to use this site, we'll assume you're OK with this, but you can opt-out. Accept Read More


ckl 21 ultimate KETO accelerator plan

Turn Your Body Into A Fat-Burning Machine With This 21-DAY KETO ACCELERATOR PROGRAM!