The brain will entrain to the strongest stimulus. If you combine binaural beats with isochronic tones, your brainwaves will entrain to the isochronic tones. If anything, when you combine the two I believe it makes the track less effective because it makes it harder for the brain to decipher between the two and synchronise to a single beat. There are lots of websites with compelling marketing about the benefits of combining the two together in some funky way, but I haven’t seen any research or lots of anecdotal feedback even to suggest it’s effective to combine them.
Everyone experiences stress, and not all stress is bad. Individuals who experience acute episodic or chronic stress are at increased risk for developing stress-related health problems. Research supports the idea that exercise can improve the way the body handles stress, and it can provide a time-out from stressors. Exercise programs meeting the current recommendations for health included within a stress management program can be effective in stress reduction. However, it is important to consider the client’s stressors and physical activity barriers, activities the client will enjoy, and the exercise setting. Prescribing exercise for clients seeking stress management is recommended, but fitness professionals should recognize that some clients will need additional assistance for managing stress and major life stressors.
It sounds like your brain might have initial trouble adapting to the binaural beats. The same thing happened to me when I listen to the Beta frequency (I got a headache), but then I discovered that I had the volume turned up too loud. I would say experiment with these frequencies, but at a low volume. See how you go. And if you continue to have anxiety, by all means, stop listening. Also, not all binaural beats are created equally. Some are amateurish, but the ones from Binaural Beats Meditation (mentioned and linked to in this article), are professionally created and the ones that I personally listen to. I love them (especially the Theta/Delta ones)! I hope this helps. :)

Escape from a stressful situation by remembering a favorite vacation spot or a place where you feel cozy and at home. “Make sure to take note of every detail of your favorite spot—the more detailed your visualization, the more stress gets kicked to the curb,” Dr. Serani says. “For me, it’s a beautiful spot on the beach in my native Long Island. But it’s not just the white velvet sand of the beach or the teal blue ocean water; it’s the sounds of the surf, the tang of the salt water, the feel of the sun, the waves in the distance, and the imagined walk I take along the water.” You can combine this with a three-word mantra like “blue-ocean-water,” Serani suggests. Miller calls the visualization of a memory that evokes a positive association an “anchor.” She remembers watching beautiful sunsets in Costa Rica. “Now that I am back in the hustle and bustle of life, I will often pause and take mini-retreats, bringing up the anchored experience of inner calm that I felt watching the sunsets,” she says.
The quickest way to relieve stress is to release endorphins through exercise. An easy way to do this is through shaking and dancing, a form of expressive meditation that loosens your joints as well as clears the mind. It’s one of our favorite techniques to teach in conflict and disaster areas, such as Haiti. Start by standing with your feet shoulder-width apart, knees slightly bent, shoulders relaxed, and shake your whole body for a few minutes (we recommend 7-8 minutes). Then, stop for a minute or two and pay attention to your breathing and physical sensations. Finally, turn on fast music – anything that gets you energized, and allow the music to move you. Don’t feel the need to follow any specific dance moves, just do whatever feels good for you in the moment (it might help to close your eyes). Dance for about 5 minutes, or until you feel satisfied.
It is important to note that not all stress is bad. Everyone experiences a certain amount of stress on an almost daily basis, and it cannot be completely eliminated. Stress becomes a problem when too much is experienced, and it has a negative impact on behaviors, relationships, and health. The term “eustress” refers to positive stress that is associated with improved performance and productivity. “Distress” is negative stress that is associated with performance decrement and negative health consequences. The individual’s perception of the stressor and coping resources determine whether a situation is eustress or distress. College graduation is a stressor for most. The student who has a job or who has been accepted to a graduate program likely perceives the stress of graduation as eustress, whereas the student who has student loans and no immediate plans of a job or further education perceives distress.
These brainwaves take a lot of energy to produce and you’ll feel really productive and focused when you’re in this state. Your brain in Beta is actively engaged, aware, and reactive. This is a great state for short-term problem solving or being engaged in exciting activities. It’s not a great state for long-term decision making or really thinking through your actions.
Because EquiSync®'s audio-based brainwave entrainment technology guides your brainwaves into various states of meditation, it helps to understand how alpha, theta, and delta waves contribute to your state of consciousness. The two charts on this page illustrate the basic benefits of each brainwave state as well as the targeting of the EquiSync programs 1, 2, & 3.
Brainwave entrainment is a simple concept. It’s simply causing your brainwave frequency to align with some intended frequency in order to produce some intended result. It’s a way of modulating your brainwaves to resonate at a certain frequency. Being that there are certain dominant frequencies associated with different states of consciousness, this is being researched as a quick and effective way to induce states such as sleep, alertness, concentration, and even meditative and deep sleep states.
Other than that the experience of those brainwave states is no different. Once we achieve a particular brainwave state using entrainment there is one significant difference to the experience and that is that we are usually still at a high level of consciousness. We’re not (hopefully) zoned out as we are when daydreaming or unconscious as we are when we’re sleeping. We maintain awareness and therefore we get to consciously experience what those brainwave states feel like in some detail.

I enjoy this one called: Cognition Enhancer For Clearer and Faster Thinking – Isochronic Tones (Electronic) … I seem to enjoy it. Any harm in just listening to this one every day for 30 minutes as a routine daily thing, just like brushing your teeth and making your bed. I would just use it at times when I’m working at my desk, maybe even reading the online news etc…Thoughts?
Alpha is the next level down, between 8Hz - 12Hz, corresponding to being awake but deeply relaxed. It can be a little confusing that Alpha is lower than Beta, but it is named that way because Alpha was the first brainwave "discovered" (identified) by Hans Berger in 1929. Meditating in this state is very relaxing and most people find it very easy to become entrained in this frequency.

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Start by kneading the muscles at the back of your neck and shoulders. Make a loose fist and drum swiftly up and down the sides and back of your neck. Next, use your thumbs to work tiny circles around the base of your skull. Slowly massage the rest of your scalp with your fingertips. Then tap your fingers against your scalp, moving from the front to the back and then over the sides.

If brainwave entrainment leaves you with unwanted side-effects (see below) or discomfort, you’re probably encouraging a range of brainwaves that are already excessive in some area of your brain. The way around this is to get a brain map to see what your brain’s strengths and weaknesses are, and see what (if any) brainwaves could use some encouragement. 
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