Gardeniae Fructus (GF) is a traditional herbal medicine listed in “The Korean Pharmacopoeia” and has been used for jaundice, liver disease, and anti-inflammatory. The propose of this study is to establish basic data for setting the shelf life of GF. The content of geniposide, a major compound of GF, was investigated by the packaging method (general, general + silica gel, vacuum, vacuum + silica gel, nitrogen, and nitrogen + silica gel) and storage period (60 months) using high-performance liquid chromatography. As a result, the content of geniposide was initially detected as 4.40%, and then 3.85-5.86% in all packaging methods for 60 months. This result can be used as basic data for quality control and shelf life of GF.