Fecal microbiota transplantation FMT has been successfully used to treat recurrent C. difficile infections as an effective regimen to improve dysbiosis. With the deepening of scientific research on intestinal flora FMT technology has also been gradually applied to clinical treatment of various diseases and has become a new treatment solution for improving digestive endocrine nervous and other systemic diseases. However there is no unified standard for the clinical operation and application of FMT. From the collection of fecal bacteria donors to the transplantation of flora and then to the monitoring of postoperative efficacy the selection of donors preparation of fecal bacteria storage conditions selection of transplantation techniques and postoperative supervision and management in various countries and regions all have different views or standards. This article refers to clinical and scientific research cases in many countries and regions in Europe and Asia combined with clinical experience and analyzes the procedures from donor screening collection and storage of fecal bacteria samples and selection of transplant surgery. The various schemes of FMT in current clinical application are comprehensively introduced and the advantages and disadvantages between different clinical operating standards are discussed. In addition we introduced and evaluated the indications and contraindications for the clinical application of FMT the occurrence of postoperative adverse events and the monitoring of postoperative efficacy in order to reduce unnecessary damage to patients' health by standardizing the scope of clinical applications. Finally the whole process of FMT clinical operation is summarized and corresponding clinical application suggestions are given. We expect to provide clinicians with a reference for FMT surgical specifications. We expect to provide clinicians with reference to FMT operating standards.