Abstract： This paper introduced the feasibility of flexible management from medical scientific re-search institutions, embarks on the aspects of construction contents such as value identity system, fuzzy eval-uation system, sharing mechanism of scientific management aims and information involving in implementing management. And the paper combined with the experience of the innovation projects in Chinese Academy of Sciences and our institution, and preliminarily expounds the construction connotations and keys of the "flexi-ble management system" in medical scientific research units to provide ideas for enriching the management thoughts of medical scientific research.