According to this post, from an intrepid person who dug through all the stuff to find out...
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Wendy's sauce contains "ghost peppers (dried)" at the very bottom of a very long list of other ingredients.Â
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http://www.bustle.com/articles/77773-do-wendys-ghost-pepper-fries-have-actual-ghost-peppers-in-them-heres-everything-you-need-to
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From the Taco Bell website-
Fiery Ghost Pepper Sauce-Soybean oil, water, jalapeno pepper, vinegar, maltodextrin, egg yolk, chili powder (including ghost chilis) contains 1% or less of cayenne red pepper, dried garlic, spice, sugar, salt, beet juice (C), xanthan gum, oleoresin paprika, propylene glycol alginate, potassium sorbate and sodium benzoate (P), calcium disodium EDTA (PF). Contains: Egg
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Commercial food ventures, whether chips or fast food chains, can't be bothered with making extract or dealing with tailiings. They either use readily available extract or dried pepper powders.
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Back to your original, there are a few threads around here about making extract. It's not easy, there's a thread about using a soxhlet to make extract. It can be a fun project if someone wants to spend the time to do it, but for most, it's easier to buy pepper extract.
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Side note- most people who have tasted pepper extract (or any number of it's other names, but it's all the same) do not care for the flavor of extract, It has a distinctive metallic nasty taste and a lot of people say it gives them a bad gut ache.