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The Exact Supplements We Use in Clinic for Gut Healing

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After thousands of patient cases at our functional medicine clinic, these are the gut-healing supplements we reach for again and again. This isn't a list of trendy products, it's the actual toolkit we build protocols around for leaky gut, IBS, post-a...
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PHASE 1 — REPAIR (Gut Lining Support)

Phase 1 of any gut protocol is repairing the lining itself. Before probiotics, before enzymes, before anything fancy, you have to fix the barrier. A damaged gut lining is why food sensitivities multiply, why supplements stop working, and why inflamma...

 
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This is the foundation of gut repair. If the gut lining is damaged (leaky gut, food sensitivities, chronic bloating), nothing else works properly until this is addressed. We use this first in almost every gut protocol. ✔ Supports gut lining repair ✔ ...
Amazon.com: Pure Encapsulations L-Glutamine Powder
 
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Used for calming irritated or inflamed digestive tissue. We use this when patients have active symptoms like burning, reflux, or IBS flares. ✔ Coats and soothes gut lining ✔ Helps with gastritis and reflux symptoms ✔ Fast symptom relief support This ...
Slippery Elm

PHASE 2 — REBALANCE (Microbiome Reset)

Once the lining is repairing, the next phase is rebalancing what lives inside your gut. Most patients we see have either too few beneficial bacteria, too much pathogenic yeast, or both — usually thanks to antibiotics, sugar, stress, or birth control....

 
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A unique beneficial yeast that helps restore microbial balance. Unlike most probiotics, it survives antibiotics and directly crowds out harmful organisms. ✔ Supports Candida and yeast balance ✔ Helps during/after antibiotics ✔ Used in SIBO protocols ...
Saccharomyces Boulardii Probiotic 240 Tablets
 
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A spore-based probiotic designed to actually survive digestion. Most probiotics never reach the gut — this one does. ✔ Helps rebalance gut microbiome ✔ Supports bloating and irregular stool ✔ Works differently than standard probiotics We often see no...
MegaSporeBiotic - Microbiome Labs

PHASE 3 — DIGEST (Break Down Food Properly)

Used when patients struggle to break down food properly. Common signs: bloating after meals, heaviness, undigested food, fatigue after eating. ✔ Improves digestion of fats, carbs, protein ✔ Reduces post-meal bloating ✔ Supports nutrient absorption Ta...

 
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Used when patients struggle to break down food properly. Common signs: bloating after meals, heaviness, undigested food, fatigue after eating. ✔ Improves digestion of fats, carbs, protein ✔ Reduces post-meal bloating ✔ Supports nutrient absorption Ta...
Pure Encapsulations Digestive Enzymes Ultra
 
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Supports stomach acid production for proper digestion. Low stomach acid is often missed but contributes to reflux, bloating, and nutrient deficiencies. ✔ Improves protein digestion ✔ Supports mineral absorption ✔ Helps reduce fermentation in gut Impo...
Designs for Health Betaine HCl with Pepsin

PHASE 4 — CALM (Reduce Inflammation)

The final phase is reducing systemic inflammation so the gut stays healed. Without this step, patients often relapse within months, the lining heals, then gets re-damaged by the same inflammatory drivers that broke it down the first time. These two a...

 
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High-quality omega-3s used to reduce systemic inflammation. Inflammation is a major driver of IBS, leaky gut, and gut-brain issues. ✔ Supports gut inflammation balance ✔ Improves cell membrane health ✔ Clinically tested purity (IFOS certified brands ...
Nordic Naturals ProOmega 2000 Lemon 120
 
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Vitamin D3 + K2 (Thorne / Pure Encapsulations) Supports immune regulation and gut barrier function. Most patients are deficient even without symptoms. ✔ Supports gut lining integrity ✔ Helps immune balance in gut ✔ Works synergistically with K2 for s...
Pure Encapsulations Vitamin D3 & K2 - Non-GMO