Our country since has implemented National Health Insurance, provided the best medical service to be easy to obtain, highly went see a doctor the option, as well as high quality medical service. But also therefore creates the health insurance wealth storehouse the loss, for this, the government implements global budget, can control the medical expense by the time. Simultaneously impels the newly hospital Evaluation, thus unceasingly increases the hospital the cost of operation. Therefore under, hurriedly changes in the external management environment, at present superintendents of the many medical establishments for ask the management achievements, positively inducts Balanced Scorecard to do for manages the tool. However Balanced Scorecard has not certainly considered between the realistic environment complex system Tightly Couple and the causes and effects back coupling relations, and has not been able to solve the influence which Time Delay creates. This research main goal for hope affiliation Systems Thinking, discusses the hospital if utilizes Balanced Scorecard, Strategy Map, comes policy of in accordance to the total amount payment system to case influence the hospital long-term transport business, then establishes System e Dynamics pattern, Simulates case hospital to implement Balanced Scorecard on four constructions surface index of correlation, and carries on the test and the confirmation to the pattern. Finally acts according to case hospital global the budget policy, designs Situation analysis and Policy simulation,as to proposes this research conclusion and the suggestion. The research method mainly is uses System Dynamics method. conclusion ¡G(1). Using simulation test of System Dynamics Model, may discover in the system Leading target, Leading target is a key point which the case hospital must pay attention.(2). By System Dynamics model, may inspect between the element and the element is linked together the causes and effects back coupling relations in the system, and case hospital originally strategy design again by Systems Thinking.(3). Using the System Dynamics , may inspect question of the case hospital concurrently digs up Counterintuitive the phenomenon,as case reference hospital strategy adjustment and policy plan. (4). Balanced Scorecard emphasis may penetrate the KPI value the weightto detect the key weight target the question,But in reality,Each key weight target change possibly comes under own and other external factors influences .Finally proposed this studies the suggestion, the research limit and the following research suggestion.