Dyspepsia, both organic and functional, and gastroesophageal reflux disease (GERD) are common among children and adults. Helicobacter pylori infection, when diagnosed, should be treated to diminish the risk of gastric ulcer and cancer, but the treatment does not always alleviate dyspeptic symptoms. Proton pump inhibitors are the first-line medication and H2-receptor antagonists the second-line medication for dyspepsia and GERD. Alternative treatment modalities for dyspepsia, GERD and Helicobacter pylori-infection are described.