I know exactly what you are talking about with the stretching and the twitching! I would stretch like in the morning when I first woke up and the movement felt jerky to me. I also had the random muscular twitches and anxiety.

I know it sounds crazy but I ended up having something called 'leaky gut syndrome'. Basically the helpful digestive bacteria in our intestines takes heavy casualties from our usage of antibiotics, either through prescriptions or by way of eating meat from animals that were fed antibiotics. When the helpful bacteria isn't there a natural yeast in our digestive tracts called candida multiplies out of control and mutates into fungal form. It weakens our intestine walls making them more porous. This allows undigested food particles, candida, and bacteria to be absorbed into your blood supply when normally it wouldn't make it past your body's defenses. The immune system is based in the gut and quickly becomes overloaded. Over time the immune system can start to target the foods we eat, vitamins and minerals that we need, and sometimes it turns on the body itself.

Leaky gut has several different ways it can materialize into symptoms. Initially it can show up as IBS (irritable bowel syndrome). Some people don't show any digestive symptoms at all. Other people develop food or environmental sensitivities, allergies, auto-immune disorders, etc. In my case, I developed food sensitivities to wheat/gluten, dairy, soy, caffeine, tomatoes and strawberries before I finally caught on. My twitching and the anxiety were symptoms of the food sensitivities.

Anyway, do some research into leaky gut and candida and judge for yourself. Just a heads up that the mainstream medical community is reluctant to take either of these seriously just yet. I had gone to my GP and a neurologist who both told me that my symptoms were stress related and that my twitching was 'benign.' I was diagnosed with what they call Benin Fasculation Syndrome or BFS. It was really just BS though. Basically they ruled out the biggies like MS, ALS and Parkinsons but didn't know what I had. I had to go to a homeopathic doctor to find the answers.

Anyway, I'm on a recovery plan and diet now. The twitching and other symptoms are much better now, but I still have them. The damage to your body is pretty severe by the time the neurological and auto-immune conditions begin to show themselves. It takes several months to heal, but it is possible. Let me know if you have any questions. Your symptoms could be because of this too. Good luck.