
Bioenergetic Functional Medicine
Volume 1
Free Online Edition
How to Read This Training Manual:
- Scroll through and read at your own pace.
- You’ll also receive a summary PDF in your email.
- Do not worry about full comprehension of every detail... the goal is to sample the material.
- See the difference between this and other Functional Medicine training programs.
- Read the Volume 1 highlights below.
- Learn about the next steps if you’d like to dive deeper.
Meet the Instructor
Jeffrey Wacks, MD
Dr. Wacks is a board-certified Family Physician, who has practiced Functional Medicine in a primary care setting since 2016. Having successfully treated thousands of patients, the training program was created with its primary mission to help facilitate the growth of the Functional Medicine movement and help professionals implement a proven system.
Volume 1 Highlights
From Binary Disease to a Spectrum of Function
Conventional medicine views health as an on/off switch—you’re either “sick” or “well.”
Functional Medicine redefines health as a spectrum of function, ranging from optimal to pathological. This model lets clinicians catch issues early, personalize interventions, and aim for vitality, not just the absence of disease.
Bioenergetic Functional Medicine moves beyond treating pathology—it measures how efficiently the body produces and uses energy across that full continuum.


Calories In ≠Calories Out
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This figure demonstrates why the popular “calories in, calories out” theory fails to explain real-world weight changes.
Even when people maintain a consistent calorie deficit, weight loss plateaus—because the body adapts by lowering its basal metabolic rate (BMR). Over time, metabolism slows, hormone function shifts, and weight often rebounds despite continued restriction.
Functional Medicine reframes this: calorie balance is not a math problem—it’s a metabolic one.
Why Low-Carb Diets Can Backfire
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When carbohydrate intake drops, the body’s fuel tank empties. Glycogen stores fall, thyroid activity slows, and the mitochondria—the body’s engine—produce less energy. You might see “good” numbers on paper (lower cholesterol, blood sugar, or TSH), but the reality is suppressed metabolism and reduced vitality.
Bioenergetic Functional Medicine teaches that true health isn’t about eating less—it’s about restoring the body’s energy supply so every system can function optimally.


Not All Fats Are Created Equal
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This figure compares fats by their oxidative stability and inflammatory potential. Saturated (SFA) and monounsaturated fats (MUFA) are stable and protective, while omega-3s offer anti-inflammatory benefits when balanced correctly. In contrast, excessive omega-6 polyunsaturated fats (PUFAs)—common in seed oils—are oxidatively unstable and promote chronic inflammation.
Bioenergetic Functional Medicine emphasizes fat quality over quantity—supporting mitochondrial health and reducing oxidative stress by prioritizing stable, anti-inflammatory fats in daily nutrition.
Fix the Metabolism, and Fat Loss Follows
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Most programs tell patients to lose fat to become healthy. The Bioenergetic model flips that logic—first, restore the metabolism, and fat loss becomes effortless and sustainable. When the body’s energy systems are optimized, hormones rebalance, stress pathways quiet down, and fat naturally burns as a byproduct of improved function.
Functional Medicine done right doesn’t chase weight loss—it rebuilds metabolic health so the body can finally do what it was designed to do: thrive.


The Gut-Liver Axis: The Gateway to Fat Metabolism
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The gut-liver axis (GLA) plays a central role in how efficiently the body processes and burns fat. When this system becomes inflamed or dysfunctional, fat can no longer move smoothly through metabolic pathways. Instead of being used for energy, it backs up into the bloodstream—raising triglycerides and free fatty acids, and slowing mitochondrial function.
Bioenergetic Functional Medicine identifies GLA health as foundational to restoring clean energy flow—healing metabolism from the inside out by fixing the root cause of fat-burning dysfunction.
Stress: When Energy Demand Outpaces Supply
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Stress arises when the body’s energy demand exceeds its energy supply. In this state, survival depends on how much anti-stress hormone reserve is available. When these reserves are high, the body can burn stored fuel efficiently and recover. When they’re low, metabolism slows—cellular function declines, thyroid activity drops, and fatigue sets in.
Bioenergetic Functional Medicine reframes stress as an energetic imbalance—showing practitioners how to strengthen the anti-stress system so the body can meet life’s demands without breaking down.


Chronic Inflammation:Â Fire that Can Damage the Engine
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Inflammation creates chaos in the body’s energy systems. It interferes with the thyroid, mitochondria, and liver, leading to reduced energy production, hormone imbalance, and oxidative stress. Most often, it begins with inflammatory foods (processed oils, sugars, or food sensitivities) or GI dysfunction (bacterial overgrowth, poor digestion, or bile flow issues).
Bioenergetic Functional Medicine addresses inflammation at its root—restoring digestive health and cellular efficiency so the body can produce clean, stable energy again.
Thyroid: The Gas Pedal for Carbohydrate Metabolism
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The thyroid sits at the center of the body’s energy system—acting as the gas pedal that drives how efficiently carbohydrates are burned for fuel. When thyroid activity is optimal, cells convert glucose into energy smoothly, supporting healthy metabolism, temperature regulation, and vitality. When thyroid output slows, carbohydrate utilization drops, forcing the body to rely on stress pathways and fat as backup fuel.
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Bioenergetic Functional Medicine recognizes thyroid health as foundational—because efficient carbohydrate metabolism depends on it.

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