During the outbreak of COVID-2019, the problem of excessive fatigue in doctors and the decline in treatment rate were caused by unreasonable medical resources scheduling. The influence factors of emergency doctors' fatigue degree were studied quantitatively. The entropy weight fuzzy analytic hierarchy process (EW-FAHP) was used to calculate the influence weight of each factor. Through the methods of reasonable allocation, policy relief and scientific rotation, the fatigue degree of doctors in emergency diagnosis and treatment was minimized. At the same time, the variable service rate was set according to the length of doctors' working time, and the birth death process model was used to analyze the queuing sequence of patients. Finally, the model was visualized by using ProModel simulation software, and the experimental group and the control group were set for comparative study. The simulation results show that the output rate of patients, the utilization rate of doctors' seats and other service indicators of considering fatigue queuing model are better than those of the traditional model. At the same time, a dynamic balance state for doctors' fatigue and patients' satisfaction is reached.