As to the second question raised in the above paragraph, audio with embedded binaural beats alters the electrochemical environment of the brain. This allows mind-consciousness to have different experiences. When the brain is entrained to lower frequencies and awareness is maintained, a unique state of consciousness emerges. This state is often referred to as hypnogogia "mind awake/body asleep."  

The Neuro Programmer website, as is typical, is full of testimonials and vague references to research. I tried to track down the research they referenced, but could not find anything published or peer-reviewed by the authors named or on the subjects indicated. For example, they cite one study by Thomas Budzynski, but the only thing published by him that is listed on Pub Med is a small study on biofeedback published in 1969. The 1999 study they reference is not listed. Also – Budzynski has connections to another company – Theta Technologies – which sells similar technology.  (The exact nature of his connection is not clear, he was at least a consultant. He is also listed as the director of research for another company, Synchromed, LLC.)  This looks like just another in-house worthless study to support the marketing of a product.
Social interaction is your body’s most evolved and surefire strategy for regulating the nervous system. Talking face-to-face with a relaxed and caring listener can help you quickly calm down and release tension. Although you can’€™t always have a pal to lean on in the middle of a stressful situation, maintaining a network of close relationships is vital for your mental health. Between sensory-based stress relief and good listeners, you’ll have your bases covered.
When you listen to binaural beats/tones, you are actually listening to two slightly different pitched frequencies. Each frequency goes to each of your ears independently. When this happens your brain responds by creating a third tone, making up the difference between the two frequencies. This shift in frequency then shifts your brain’s consciousness and changes your state.
The thing about conditioning is, it doesn’t matter whether the conditioned response is pleasant or unpleasant, desirable or undesirable. The process of conditioning works just as well both ways. You went looking for any indication you were getting an effect by using entrainment and you happened to have an unpleasant experience that you focused on. To the mind it is irrelevant whether it was pleasant or unpleasant. One way works just as well as the other. But the fact remains; it was your general expectations that resulted in a specific situation of conditioning.
From a strictly physical/emotional viewpoint, the benefits of meditation include (but are not limited to) such things as greater resistance to stress; less physical illness and improved resilience when illness does occur; better quality of sleep and increased recovery during sleep; a generally magnified sense of well-being; a sharper, clearer mind; increased capacity for learning; improved functioning in daily life; more harmonious relationships; greater control over emotional states, and more.
Brainwave entrainment is a colloquialism for such 'neural entrainment', which is a term used to denote the way in which the aggregate frequency of oscillations produced by the synchronous electrical activity in ensembles of cortical neurons can adjust to synchronize with the periodic vibration of an external stimuli, such as a sustained acoustic frequency perceived as pitch, a regularly repeating pattern of intermittent sounds, perceived as rhythm, or of a regularly rhythmically intermittent flashing light.
A binaureal beat is created by playing a different tone in each ear, and the interference pattern between the slightly differing frequencies creates the illusion of a beat. It's intended to be heard through headphones, so there's no cross-channel bleed across both ears. Listen to this, I'll play a simple binaural beat, and I'll slide the pan control back and forth from one ear to the other. You can see that there isn't actually any beat, it's just an acoustic illusion:
^ Bittman, B. B., Snyder, C., Bruhn, K. T., Liebfreid, F., Stevens, C. K., Westengard, J., and Umbach, P. O., Recreational music-making: An integrative group intervention for reducing burnout and improving mood states in first year associate degree nursing students: Insights and economic impact" International Journal of Nursing Education Scholarship, Vol. 1, Article 12, 2004.

Maybe a favorite popular song, a certain piece of Classical music, a raucous dance beat, the pulse of Reggae, Indian, or African drums, or the chanting of Gregorian or Tibetan monks, but you probably know how the sound of music, drumming, or chanting is capable of transporting you into an altered and joyous state of mind and uplifting your spirits.
Theta brain waves occur most often in sleep but are also dominant in deep meditation. Theta is known to be a dreamlike state with vivid imagery, intuition and information beyond your normal conscious awareness. This state of mind is excellent for psychic experiences to occur, as well as astral projection and extended remote viewing. To reach this state without falling asleep while meditating takes practice.
“In order to get into a flow state, you have to calm a part of the brain, the posterior cingulate cortex, which is the source of what brain scientists call the default state, which is the non-focused state,” says Harris. “At any rate, it turns out that Holosync [binaural beats], when you listen to it, [calms that part of the brain] and so does traditional meditation. It’s just Holosync does it faster and more easily and more effortlessly. It turns down the posterior cingulate cortex and it enhances the other part of the brain that, when it’s enhanced, you can easily go into a flow state.”
Theta brainwaves in the frequency range of 6 to 9 hertz are known as thalpha waves because of their proximity to alpha waves. They are seen during states of high suggestibility, during hypnosis, and during paranormal experience and are also connected to an increase in human growth hormone (HGH) levels and higher blood flow to the brain. Theta brainwaves sit between the realms of the subconscious and conscious mind, making them an especially useful brainwave state for developing creative thinking, working through emotional problems, and integrating subconscious and conscious experience. 
Beta waves are the most common and most prevalent in the brain. These are the brain waves of alertness, dominating your normal waking state of consciousness. The Beta state relates to “fast” activity with neurons firing abundantly, in rapid succession, with attention focused directly towards cognitive tasks and the outside world. Beta activity is engaged in focused mental activity, problem solving, judgment and decision making. New ideas and solutions to problems flash like lightning into your mind.
The effects are strongest while you are listening to the tones because your brainwaves are synchronized and tuned into the frequency range you desire at that time.  After you've stopped listening the effects can still linger for a while afterwards.  The timescale will vary from person to person and be affected by what you do after you've stopped listening.

This incredible app which you  not only has over 3 hours of meditations valued at $200, the technology utilized is unlike anything else on the marketplace. The heartbeat synchronization augmentation gives you a completely immersive experiencing, tuning in to your body’s natural rhythms. It gives you the best binaural music on the market. Fully customizable, you can base your meditation on your mood, goals and timeframe. This is the perfect app for a deep, introspective experience.

Meanwhile, the therapeutic benefits of listening to sound and music is a well-established principle upon which the practice of receptive music therapy is founded. The term 'receptive music therapy' denotes a process by which patients or participants listen to music with specific intent to therapeutically benefit; and is a term used by therapists to distinguish it from 'active music therapy' by which patients or participants engage in producing vocal or instrumental music.[37] Receptive music therapy is an effective adjunctive intervention suitable for treating a range of physical and mental conditions.[38]