is a perennial herbaceous plant in the Asteraceae family that is used as a medicine and food owing to its superior pharmacological properties. Irrespective of its application, must be dried before use. Shade drying (YG) and heat drying (HG) are the two drying methods used in most origins. Given the abundance of flavonoids, phenolic acids, and terpenoids, the primary medicinal active constituents of , it is important to determine whether the composition and content of these compounds are altered during the drying processes. To test this, the changes in the chemical composition of flowers after YG and HG using full-spectrum, non-targeted LC/GC-MS-based metabolomics and, subsequently, the three indicator components of -chlorogenic acid, 3,5-dicaffeoylquinic acid, and luteolin-7-O-glucoside-were accurately quantified by HPLC. The results of the non-targeted metabolomics analysis revealed that YG- and HG-processed differed significantly with respect to chemical contents, especially flavonoids, phenolic acids, and terpenoids. The levels of the indicator components and their precursors also differed significantly between the YG and HG treatments. The contents of most of the flavonoids and key phenolic acids, terpenoids, and carbohydrates were higher with YG than with HG pre-treatment. These results revealed the changes in the chemical composition of during the YG and HG processes, thus providing a reference for the further optimization of the production and processing of chrysanthemums.