To manage a sore throat that accompanies acid reflux, it’s more effective to treat the underlying cause: gerd both over-the-counter (otc) and prescription medications work by eliminating. Acid reflux cause throat pain. Pain from acid reflux is often characterized as a sharp pain, which gets worse with coughing meanwhile, chest pain from non-acid reflux sources could be described as a deep, searing pain heart-related chest pain often radiates to other parts of the body including the back, neck, shoulders, and arms.