1、三类医疗器械经营许可证办理方式如下：
（1）申请人提交申请资料到相关部门；
（2）相关部门受理申请人的申请；
（3）到实际场地进行勘察以及对产品进行审核；
（4）准予颁发三类医疗器械许可证。
2、法律依据：《医疗器械监督管理条例》第十四条
第一类医疗器械产品备案和申请第二类、第三类医疗器械产品注册，应当提交下列资料：
（一）产品风险分析资料；
（二）产品技术要求；
（三）产品检验报告；
（四）临床评价资料；
（五）产品说明书以及标签样稿；
（六）与产品研制、生产有关的质量管理体系文件；1、经营企业提交的《医疗器械经营企业许可证申请表》应有法定代表人签字或加盖企业公章；2、《医疗器械经营企业许可证申请表》所填写项目应填写齐全、准确；3、法定代表人的身份证明、学历职称证明、任命文件应有效；4、工商行政管理部门出具的《企业名称预先核准通知书》或《工商营业执照》的复印件应与原件相同，复印件确5、房产证明、房屋租赁证明（出租方要提供产权证明）应有效；6、企业负责人、质量管理人

Supervision and Administration of Medical Devices for the filing of Class I medical devices and the application for the registration of Class II and Class III medical devices, The following materials shall be submitted: (1) product risk analysis data; (2) technical requirements of the product; (3) product inspection report; (4) clinical evaluation data; (5) product specification and label samples; (6) quality management system documents related to product development and production; 1. The Application Form for Medical Device Business Enterprise License submitted by the operating enterprise shall be signed by the legal representative or affixed with the official seal of the enterprise; 2. The items filled in the Application Form for License of Medical Device Business Enterprises should be complete and accurate; 3. The identity certificate, academic title certificate and appointment documents of the legal representative shall be valid; 4, the copy of the "enterprise name pre-approval notice" or "industrial and commercial business license" issued by the industrial and commercial administrative department should be the same as the original, 5, the real estate certificate, the house lease certificate (the lessor should provide the property right certificate) shall be valid; 6. Responsible person in charge and quality manager