Overview: Pantoprazole is used to treat acid reflux and other conditions where you have too much acid in your stomach. It works by reducing how much acid your stomach makes and usually takes a. Pantoprazole is only indicated for the short-term treatment of erosive esophagitis in children ages seven and older; and the safety and effectiveness of pantoprazole have only been established in the treatment of erosive esophagitis in children. Learn about the side effects of pantoprazole, from common to rare, for consumers and healthcare professionals. Pantoprazole sodium delayed-release tablets are a prescription medicine called a proton pump inhibitor (PPI). Pantoprazole sodium delayed-release tablets reduce the amount of acid in your stomach. Pantoprazole is a proton pump inhibitor used to treat GERD, erosive esophagitis, and Zollinger-Ellison syndrome by reducing stomach acid production. This medicine may also be used to treat Zollinger-Ellison syndrome, a condition where the stomach produces too much acid. Pantoprazole is a proton pump inhibitor (PPI). It works by decreasing the amount of acid produced by the stomach. This medicine is available only with your doctor's prescription. What Is Pantoprazole and How Does It Work? Pantoprazole is used to treat certain stomach and esophagus problems (such as acid reflux). It works by decreasing the amount of acid your stomach makes. This medication relieves symptoms such as heartburn, difficulty swallowing, and persistent cough.