Transcranial Magnetic Stimulation, often called TMS, and Magnetic e-Resonance Therapy, known as MeRT®, are non-invasive brain treatments that use magnetic pulses to influence brain activity. Although they share underlying technology, they are used for different purposes. TMS is an FDA-cleared treatment for individuals living with treatment-resistant depression. MeRT® takes a more individualized, qEEG-guided approach and is used for a wider range of conditions, including depression, anxiety, post-traumatic stress disorder, autism spectrum disorder, and other neurological or mental health conditions. One of the most common early side effects of either treatment is a mild headache or a sense of pressure during or after a session.
Feeling a headache during the first few treatments can understandably cause concern. Many people wonder whether this discomfort is expected or if it means something is wrong. The encouraging news is that headaches from TMS and MeRT® are typically mild, temporary, and manageable, especially with a few simple strategies. Understanding why headaches happen and how long they usually last can make the treatment process feel more comfortable and predictable.
This guide explains what headaches from TMS and MeRT® mean, why they occur, what you can do to feel better, and how The Insync Brain supports each person throughout the treatment journey.
What Are TMS and MeRT®
Both TMS and MeRT® use magnetic pulses applied gently to the scalp to influence brain activity. Although the technologies overlap, the treatment approaches are different.
TMS
TMS is an FDA-cleared, non-invasive treatment for treatment-resistant depression. It works by using a fixed protocol to send repeated magnetic pulses to specific brain regions that play a role in mood regulation. The stimulation helps activate underperforming neural pathways. During treatment, a coil sits on the head while pulses are delivered in patterned intervals.
Magnetic e-Resonance Therapy
MeRT® uses the same technology as TMS but with a more individualized approach. Treatment begins with a qEEG that maps the brain’s electrical activity, identifying patterns that may benefit from stimulation. Coil placement and frequency are then tailored to each person’s unique brain wave activity. MeRT® is used for a wide range of conditions, not just depression.
Common Side Effects of TMS and MeRT®
Most side effects are mild and short-lived, especially in the first week. The most common include:
- Mild headache
- Sensitivity on the scalp
- Forehead or eyebrow muscle twitching
- Temporary fatigue
- A tapping or pressure sensation during the session
- Mild irritability or mood changes during early adjustment
Most individuals find that these side effects lessen quickly as they adapt to stimulation.
Why Headaches Are a Common Side Effect
Headaches from TMS and MeRT® are very common, especially in the first three to five sessions. This happens for a variety of reasons and is usually not a sign that anything is wrong.
Muscle Activation
Magnetic pulses cause small muscles in the forehead and scalp to contract. Repeated activation can lead to mild tension that feels similar to a tension headache.
Nerve Sensitivity
Nerves in the scalp are close to the surface. Magnetic stimulation can temporarily activate or irritate these nerves, creating short-lived discomfort.
Brain Adjustment
Both treatments influence how the brain communicates. During treatment, the brain is adjusting to new patterns, which can sometimes create a mild headache.
Hydration
People who arrive dehydrated, tired, or stressed are more likely to experience headaches. Treatment may highlight this sensitivity.
How Long Do Headaches from TMS and MeRT® Last
Most headaches related to treatment are temporary. They often occur during or shortly after a session and improve within a few minutes to a few hours.
Typical Timeline
- Most headaches fade within 30 minutes to 2 hours post-treatment
- Many individuals notice fewer headaches after the first week of treatment
- By the second week, headaches often decrease significantly
- Persistent or intense headaches are uncommon and can be adjusted for
If a headache lasts longer or worsens over time, it is always appropriate to let the treatment team know.
What You Can Do To Reduce Headaches
Several simple steps can improve comfort and reduce the likelihood of headaches during the early phase of treatment.
Helpful Strategies
- Hydrate well before and after sessions
- Eat before your appointment and have a light snack afterwards
- Use over-the-counter pain relievers if recommended by your medical provider
- Use warm compresses on the back of the neck or forehead if muscles feel tight
- Practice slow, deep breathing before and during treatment
- Ask the technician about possible adjustments
When to Contact the Clinic
Reach out if:
- The headache becomes severe
- The headache lasts longer than expected
- You experience new symptoms such as nausea or visual changes
- You have a history of migraines that worsen with treatment
How The Insync Brain Supports You During Treatment
At The Insync Brain, we are here to support you every step of the way. Your comfort and safety are our top priorities, and we check in regularly throughout treatment to make sure you feel informed and at ease. Every person begins with a qEEG so we can understand your baseline brain activity and monitor changes over time. During sessions, you are always encouraged to tell us how things feel so we can address discomfort and make appropriate adjustments within safe clinical guidelines. Whether you are receiving TMS or MeRT®, our team is committed to providing a calm, compassionate environment where you feel cared for and supported throughout your treatment journey.
This information is for educational purposes only and is not medical advice. Always consult your healthcare provider or treatment team with any questions about your symptoms, treatment options, or medical care.