When the stomach does not have enough acid, there will be a slow decline in general health because the body needs this acid for proper digestion and absorption of nutrients. This includes calcium and other minerals that are involved in bone formation. Studies have shown that heartburn medications are linked to increased fracture risk associated with osteoporosis, most likely because of this decreased nutrient absorption. One can imagine the other negative health effects that a deficiency of nutrients can cause. In addition, stomach acid kills organisms that our bodies get exposed to, so less acid means a possible overgrowth of unwanted guests in the body.
It is important not to ignore acid reflux, also called GERD, because the cells of the esophagus can be damaged, which is serious. I recommend seeking the advice of a naturopathic physician for natural treatments in order to avoid the side effects associated with long-term use of acid reflux medications.