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Rich, vibrant fermented hot sauce in glass bottles.
Peppers & Sauces

Fermented Hot Sauce with Habaneros and Roasted Winter Squash

This fermented hot sauce is made with roasted winter squash, roasted garlic, red habaneros and Guajillo chiles. It’s naturally smooth, naturally emulsified via the fermented winter squash, and contains live active probiotics.

Prep: 30 minutes
Total: 504 hours 30 minutes
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Recipe Index | Ferment | Peppers & Sauces

Fermented Hot Sauce with Habaneros and Roasted Winter Squash

This fermented hot sauce is made with roasted winter squash, roasted garlic, red habaneros and Guajillo chiles. It’s naturally smooth, naturally emulsified via the fermented winter squash, and contains live active probiotics.

Rich, vibrant fermented hot sauce in glass bottles.

The Peppers You Need For This Fermented Hot Sauce

  • Red Habaneros: I get these from a local Latin American grocery store. If you can only find orange habaneros, those will work perfectly too, but red makes for the best color. As always, organic is best.
  • Red Bell Pepper: I like red bell pepper best for flavor and color in this fermented hot sauce, but you can use any color bell pepper you want. Red, orange, and yellow are best, and try to use homegrown or organic for the best results. If you use green bell pepper, the sauce may end up a brown color.
  • Dried Guajillo Chiles: Any dried chiles will do in this recipe, but I like Guajillo chiles the best. I also get my dried chiles from the local Latin American grocery store. I think they add the perfect balance of flavor and heat.

If you want a smokier flavor, you can use dried chipotle chiles instead of Guajillo. If you like a super hot sauce, you can also sub some of the red bell pepper for more habanero in the recipe!

Colorful assortment of fresh red bell peppers, garlic, onion, and butternut squash on a wooden board with sliced pepper and garlic.
Fresh vegetables ready for cooking

My secret ingredient for naturally emulsified hot sauce

This hot sauce is naturally thick and emulsified, with no need for cooking, added ingredients, or emulsifiers. I have a secret ingredient for this perfect, smooth, fermented hot sauce texture–it’s butter nut squash! (or any winter squash, including pumpkin). When lactic acid bacteria ferment the starches in winter squash, they naturally convert them into emulsifying compounds called exopolysaccharides. So when we blend our hot sauce after fermentation, there’s no watery separation in the bottle!

A person prepares a colorful vegetable jar using a tamper in a well-lit kitchen setting, surrounded by fresh ingredients like tomatoes, peppers, and eggs.
A person places a fermentation weight in a jar full of colorful vegetables.
A person tightens the lid on the jar and it is ready for fermentation.

Roasting Ingredients Before Fermentation

I absolutely love roasting ingredients to incorporate into fermentation. For this recipe, we only roast two ingredients: winter squash and garlic. The remaining ingredients are raw and still contain all the wild microbes we need to initiate fermentation.

Fermented Hot Sauce Timeline

Here is the timeline for fermenting hot sauce at a moderate room temperature (about 76° F). Cooler temperatures will slow things down, and warmer temperatures speed up this timeline.

  • 24 – 72 hours: All contents in the jar should be submerged beneath the brine.
  • 72 hours – 9 days: After 72 hours, you should see lots of bubbles. This is when you will burp the jar (open the lid and make sure everything is submerged below the brine; clean the lid off if necessary). This is stage two of vegetable fermentation. Leuconostoc bacteria begin to thrive and produce a lot of carbon dioxide. Gram-negative organisms die off. You may notice an acidic smell and color changes during this time.
  • 9 – 14 days: The bubbles in the brine will decrease as the ferment leaves stage two and enters stage three. The brine will be very cloudy and start to develop a pleasant sour smell. The peppers and squash will also begin to change color from vibrant to more muted colors. Lactobacillus species are most abundant during this period.
  • 14 – 28 days: Lactobacillus comprises most or all of the microbial population. They produce copious amounts of lactic acid, making the ferment smell even more pleasantly sour. This is when the pepper, squash, and garlic mixture becomes well-preserved. Wait for the peppers to stop bubbling, then proceed to blend and strain the sauce.
A person takes the fermentation weight out of the jar as the fermentation is now complete.

Bottling and Using All Parts

Since you strain the sauce, you will have some pepper pulp left over. Please do not throw it away! Put it in a mason jar and keep it to cook with. It is fantastic in soups, stews, braises, and especially ramen.

Essentially, this recipe gives you two sauces: garlic sriracha hot sauce and a garlic pepper paste. Yay!

A top-down view of a fermented vegetable mixture being blended with an immersion blender.
Delicious homemade hot sauce sauce being poured through a strainer into a pitcher.
The mixture needs to be thoroughly stained for a smooth consistency.
A spoonful of the pulp that is leftover after straining the hot sauce.

How long does fermented hot sauce keep?

This hot sauce keeps for at least a year in the fridge, likely longer. We usually use up all our fermented hot sauce quickly, so I’ve never kept any beyond a year.

Do I need to store it in the fridge?

Yes! This hot sauce is not cooked, so it contains live active microbes that will continue to ferment at room temperature. It needs to be stored in the fridge to slow the fermentation and preserve the flavor profile.

Pouring the strained fermented hot sauce into a dedicated hot sauce bottle.

Why do you cook some fermented hot sauces, but not this one?

This one is not a “sweet heat” hot sauce. My pineapple hot sauce and my sriracha hot sauce recipes intentionally have sweetness as part of their flavor profiles. To preserve some sweetness in the flavor, we have to cook them to stop the fermentation. Otherwise, all the sweetness would be fermented into acidity. I also cook my other fermented hot sauces to thicken them naturally. This hot sauce is naturally thickened with roasted winter squash instead and is not sweet.

Hands holding a bottle of the finished fermented hot sauce.
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Rich, vibrant fermented hot sauce in glass bottles.
Peppers & Sauces

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Fermented Hot Sauce with Habaneros and Roasted Winter Squash

This fermented hot sauce is made with roasted winter squash, roasted garlic, red habaneros and Guajillo chiles. It’s naturally smooth, naturally emulsified via the fermented winter squash, and contains live active probiotics.

  • Prep: 30 minutes
  • Total Time: 504 hours 30 minutes

Ingredients

  • 30 grams red habaneros
  • 250 grams red bell pepper*
  • 3 dried Guajillo chiles
  • 100 grams yellow onion
  • 200 grams butternut squash, peeled*
  • 50 grams garlic*
  • 200 grams water
  • 38 grams salt

Instructions

  1. This recipe at 1x works best with a 32-ounce jar for the fermentation and a 16-ounce bottle for the sauce. Wash your fermentation equipment, including the jar, weight, and lid.
  2. Peel and chop the butternut squash and peel and crush the garlic cloves.
  3. Line a baking sheet with parchment paper and preheat your oven to 450° F
  4. Dry roast (NO OIL) the squash and garlic for about 20 minutes until lightly browned and crispy on some edges.
  5. Wash all the peppers and slice/chop them up. (Wear gloves if you are sensitive to peppers).
  6. Place your kitchen scale on the counter. Turn it on and set it to weigh in grams. Place a mixing bowl on your kitchen scale and tare/zero the scale.
  7. Add everything except the salt and water to a bowl, measuring out the designated amount.
  8. Remove the bowl from your scale and set it aside. Place your empty, clean mason jar on the scale, and tare/zero the scale. Ensure your scale is still set to grams, and add the designated amount of salt and filtered water to your mason jar.
  9. Stir until all the salt is dissolved.
  10. Add the rest of the ingredients, into the mason jar with the salt water. You will need to mash the peppers into the jar with a tamper or wooden spoon to pack them in, as you do the brine will come up.
  11. Place your fermentation weight in the jar making sure to submerge all of the pepper pieces and weight fully in the liquid. (it can be helpful to use an outer cabbage leaf or lettuce leaf to tuck everything in before placing the fermentation weight). 
  12. Secure the lid to the jar and ferment at room temperature for at least 21 days. I suggest fermenting until the bubbles stop.
  13. After fermentation, add everything to a blender. Blend on high until smooth.
  14. Place a colander over a large pitcher or pot and strain the sauce. You can mash the pulp in the colander with a spoon to get all the juices out. (don’t forget to save the pulp! put it in a little jar to use in cooking.)
  15. Using a funnel, bottle the sauce. Store in the refrigerator. Use within a year for the best flavor. (If you’d like to gift this sauce, it can be out of the fridge for a bit). 

Notes

  • Sub some of the bell pepper for more habanero if you like super spicy hot sauce!
  • I used butternut squash but any winter squash will work great. 
  • The garlic and squash amounts are the pre-roasted weight. 
  • You can use other peppers in this recipe, as long as the total pepper weight is 280 grams. Peppers above 500,000 Scoville units contain an extremely high concentration of capsaicin. At those levels, capsaicin is bactericidal and can prevent natural fermentation. Choose your peppers accordingly

Did you make this recipe?

Please leave a 5-star review below if you loved it! Tag @cultured.guru on Instagram

 

Nutrition information is auto-calculated and estimated as close as possible. We are not responsible for any errors. We have tested the recipe for accuracy, but your results may vary.

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Kaitlynn Fenley Author, Educator, Food Microbiologist
Kaitlynn is a food microbiologist and fermentation expert teaching people how to ferment foods and drinks at home.
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A lot of people think vinegar kills all microbes b A lot of people think vinegar kills all microbes because shelf stable pickles do not contain microbes. But with shelf stable pickles, it’s the pasteurization/sterilization via hot water bath or pressure canning that makes shelf stable pickles free of microbes.

Hot hot hot acid in a pressurized environment does kill, well…most microbes. 

Think about “refrigerator pickle” recipes, though. They need to be stored in the refrigerator because vinegar alone doesn’t stop fermentation.

Fridge pickles are made without pasteurization/sterilization (canning) so they will wild ferment without refrigeration, and not necessarily in a good way because there’s not enough salt. 

All vinegar is made via fermentation too, and vinegar fermentation involves acetic acid bacteria, but also a ton of LAB, mainly Lactobacillus, Pediococcus, and Leuconostoc (the same genera you’d find in fermented veg.)  I linked a reference paper in my fermented mushroom recipe blog, so you all can read about the LAB involved in vinegar fermentation. 

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#mushrooms #fermentation
I will not ever wild lacto ferment just beets agai I will not ever wild lacto ferment just beets again lol. Mixing with cabbage for beet sauerkraut is the best though! 

“Lacto fermented beets” was the first ferment I tried to make after learning sauerkraut in college. My best friend Sidney came over and we used these gorgeous beets from the farmers market, with 2.5% salt, and some spices. Well, it ended up tasting like beet moonshine and it was just… not good.

But it was a conduit for learning. Those beets were my first lesson in how different sugars and growth in the rhizosphere vs the phyllosphere influences fermentation. 

Cabbage and the cabbage microbiome offer a lot to balance out beets in fermentation, and I think mixing into a sauerkraut is the only way to go for lacto fermenting beets! 

Try googlin’ “beet and red cabbage sauerkraut” and you’ll see my recipe, I’m Cultured Guru.
Squash is the secret ingredient! My Roasted Butte Squash is the secret ingredient!

My Roasted Butternut Squash Hot Sauce recipe is free on my website! I didn’t cook this one, so yes it’s still probiotic.

When lactic acid bacteria ferment the starches in winter squash, they naturally convert them into emulsifying compounds called exopolysaccharides. So when we blend our hot sauce after fermentation, there’s no watery separation in the bottle. Roasting the squash with the garlic for the recipes also adds such good flavor! 

Definitely make sure it’s fully fermented and not bubbling anymore before you blend and bottle. Otherwise, it’ll carbonate in the cute little hot sauce bottles.

#hotsauce
Myth Busting: Yes, the SCOBY IS the pellicle! Plee Myth Busting: Yes, the SCOBY IS the pellicle! Pleeeease stop saying it’s not. 😌



Watch till the end, I show you how to grow one!



This is a little tidbit from what I teach in the Kombucha lesson in our Fermented Drinks Semester online course!

I also share this recipe FOR FREE just ✨GOOGLE✨ “cultured guru SCOBY” and you’ll see my full recipe with the perfect sugar to tea ratios for growing, feeding and maintaining a kombucha SCOBY.

#kombucha
And the knife stays in the box. GOOGLE “sourdoug And the knife stays in the box. 

GOOGLE “sourdough king cake” my recipe is the first one! 👑☂️💚✨

If you’re like me and prefer from scratch, homemade everything, you’ll definitely want to try this king cake for Mardi Gras! I used organic naturally dyed sprinkles and all that jazz too. 

If you just search “sourdough king cake” on google you’ll see my recipe, it’s usually the first one. 

My main tips for making this:
✨use a very active starter or throw in some instant yeast with your starter
✨make sure the dough is actually proofed before shaping it. If it’s cold in your house it will take longer. 
✨please follow directions! You can cold ferment the dough in the fridge after it doubles in size and BEFORE filling and shaping.

🎵Song is Casanova by Rebirth Brass Band
Fermentation is a gift from the microbes of this e Fermentation is a gift from the microbes of this earth.

When we had a food business, I could never shake the feeling that fermentation is not meant to be sold to you from a fluorescently lit grocery shelf in an endless cycle of waste. Fermentation is meant to be cultivated in your home, with your hands, with intention and love in a sustainable, grateful practice of reciprocity and nourishment. 

This is the story of how we got here. 

After so many lessons learned, our small fermentation business is now value aligned, peaceful, fulfilling, and happy.  It often seems like the gut feelings (the microbes within us) guided us in the right direction. To teach. 

You can learn for free on our blog, or you can enroll in our online courses (we extended our new year sale!) Either way, with me as your teacher, you’ll learn to adopt a holistic perspective on the microbial ecosystems that influence our food, lives, and the planet.
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