✦ Ulcer: Belly button pain is another common symptom of stomach or intestinal ulcer, a small tissue erosion in the gastrointestinal (GI) tract. Smoking, alcohol abuse, or H. pylori infections, consumption of acidic and spicy foods, etc., are some common causes of ulcers in the GI tract. Vomiting, nausea, frequent burping, and hiccuping, loss of appetite, are few other symptoms of this health disorder, along with pain behind the belly button.