Are you actually intolerant or is it FODMAPs?
Dr Chad OkayFounder, Suna Health4 min read. Updated .
Most people who say they're intolerant to dairy, gluten or onions are actually reacting to FODMAPs (fermentable carbs) in those foods, not the dairy or gluten itself. The difference matters: a true intolerance means lifelong avoidance; a FODMAP issue means you can probably tolerate moderate amounts of the same foods if you find your dose. A 4-week elimination then structured reintroduction tells you which it is.
Almost everyone has at least one food they think they react to. The vast majority of those reactions aren't classic allergies and they're not even classic intolerances. They're FODMAPs, fermentable short-chain carbohydrates that pull water into the gut and ferment into gas. Sorting which is which saves years of unnecessary food avoidance.
What FODMAPs are
FODMAPs stands for Fermentable Oligo-, Di-, Mono-saccharides And Polyols. The main groups are fructans (in wheat, garlic, onion), galacto-oligosaccharides (in legumes, soy), lactose (in milk products), excess fructose (in honey, mango, apple), sorbitol (in apple, stone fruit, sugar-free gum) and mannitol (in cauliflower, mushrooms).
In a normal gut, FODMAPs cause harmless gas. In a sensitive gut, the same gas plus the water FODMAPs pull into the small intestine causes pain, bloating and altered bowel habit.
Real intolerances
- Lactose intolerance: real, common, and easy for a doctor to confirm. The reaction usually starts within a few minutes to a few hours of dairy. Most people who are lactose intolerant tolerate hard cheese and live yoghurt fine.
- Coeliac disease: an immune reaction to gluten, confirmed by a blood test (tTG-IgA) and a small camera-test sample. Strict gluten-free for life.
- True wheat allergy: rare, with hives or breathing trouble within minutes of eating. That one belongs with an allergy specialist.
- Histamine intolerance: contested as a label, but the pattern (flushing, headache after wine and aged cheese) is real for some.
- Caffeine sensitivity: real but often mistaken for general anxiety.
What 'intolerance' usually actually is
- Wheat intolerance → usually fructans (a FODMAP), not gluten. Sourdough often tolerated because long fermentation breaks down fructans.
- Onion/garlic intolerance → fructans again. Cooked vs raw rarely matters; dose matters.
- Apple/stone fruit intolerance → sorbitol or excess fructose.
- Bean intolerance → galacto-oligosaccharides. Soaking and slow cooking helps, and an alpha-galactosidase enzyme supplement helps some people with the gas.
- Cauliflower/mushroom intolerance → mannitol.
- Sugar-free gum/sweets intolerance → sorbitol or mannitol again.
How to find out which one you have
- Rule out coeliac first: a blood test from your doctor, done while you are still eating gluten. Don't cut gluten before testing or you'll get a false negative.
- Try a 4-week strict low-FODMAP elimination. Use the Monash app for the food list. Symptoms usually improve within the 2-6 week restriction phase if FODMAPs are involved.
- Reintroduce ONE FODMAP group at a time, in increasing doses across 3 days, with rest days between groups.
- Keep a daily symptom log. Patterns are clearer in writing than in memory.
- After 6-8 weeks of structured reintroduction you'll know which groups you tolerate, which you tolerate at moderate doses, and which trigger symptoms.
- Most people end up tolerating 4-5 of the 6 groups in normal portions and being careful with 1-2.
Why this matters
Long-term avoidance of foods you're not actually intolerant to costs you. It restricts diet diversity and consistently lowers beneficial Bifidobacteria, which is why it is not meant to be permanent. It increases anxiety around eating. It makes social eating harder. And it usually doesn't reflect what's actually happening in your gut. Spending 10 weeks (4 elimination + 6 reintroduction) to find your real picture saves years of unnecessary restriction.
When to skip the DIY route
- IBS severe enough to disrupt work or sleep deserves specialist help, arranged through your doctor.
- Suspect coeliac (anaemia, weight loss, family history), get the test before any dietary change.
- Eating disorder history, restrictive diets are risky and need supervised support.
- Vegetarian/vegan and worried about nutrient gaps during elimination, work with a registered dietitian.
- Pregnancy or trying to conceive, wait until later or do this with dietitian supervision.
Common questions
- How do I know if it's coeliac and not FODMAP?
- The blood test is the only reliable way, and it must be done while you're still eating gluten daily. If it comes back positive, expect your doctor to arrange a confirmatory camera test. Coeliac requires strict lifelong gluten-free; FODMAP sensitivity does not.
- Can I just go gluten-free instead of bothering with the FODMAP test?
- Possible but suboptimal. Most 'gluten sensitivity' turns out to be fructan sensitivity. In a double-blind trial, fructans, not gluten, drove the symptoms. If you go gluten-free without testing, you can't tell which it is. You'll often find you can have sourdough wheat bread or small amounts of pasta on holiday with no issue, because the fructans were the problem, not gluten.
- Will I feel worse before I feel better on low-FODMAP?
- Some people do for the first 2-3 days as the gut adjusts. Most responders feel meaningfully better within the 2-6 week restriction phase. If you feel worse for the full 4 weeks, FODMAPs probably aren't the issue and you can stop.
- Do I need a dietitian?
- The reintroduction phase is where guidance earns its keep. Phase 1 is straightforward; phase 2 has the highest dropout rate when done alone. In the UK your doctor can refer you, and Monash-trained private dietitians exist too; a few sessions across the reintroduction months is the typical shape.
Sources
- The Low-FODMAP Diet in Clinical Practice: Evidence-Based Indications, Implementation, and Interprofessional Care (StatPearls, 2024) (NCBI Bookshelf / StatPearls)
- Skodje et al. Fructan, Rather Than Gluten, Induces Symptoms in Patients With Self-Reported Non-Celiac Gluten Sensitivity (Gastroenterology, 2018) (PubMed / Gastroenterology)
- Technological Methods for Reducing the Content of Fructan in Wheat Bread (PMC, 2019) (PubMed Central / Antioxidants)
- Lactose intolerance: What can lactose-intolerant people eat? (InformedHealth.org) (NCBI Bookshelf / IQWiG InformedHealth)
- Ganiats et al. Does Beano prevent gas? A double-blind crossover study of oral alpha-galactosidase (J Fam Pract, 1994) (PubMed / Journal of Family Practice)
- Effects of a low FODMAP diet on the colonic microbiome in IBS: a systematic review with meta-analysis (PMC, 2022) (PubMed Central / Am J Clin Nutr)
- Serum diamine oxidase (DAO) activity as a diagnostic test for histamine intolerance (PMC, 2013) (PubMed Central / Clin Exp Allergy)
- Lactose intolerance overview and diagnosis (NHS) (NHS)