Objective To analyze the Medication Regularity about heart disease in Clinic Guideline of Medicine Records. Methods This paper collected 161 prescriptions about heart disease treatment in Clinic Guideline of Medicine Records, employed the Apriori association rules algorithm and complex system entropy clustering for data mining method, and analyzed the medication regularity about heart disease in Clinic Guideline of Medicine Records. Results Through the analysis and selection of prescription, there were 30 herbs that the frequency of using were more than 10 times,23 herb pairs that the correlation coefficient were greater than 0.02, and 9 new prescriptions. Conclusion From the inheritance system of traditional Chinese medicine, we found that Ye’s treatment of heart diseases is mainly based on four methods: Xingan Wentong, Ziyin Yangxue, Reduce phlegm-fluid, Bugan Yishen. The treatment for heart disease in Clinic Guideline of Medicine Records is not only focused on tonifying the heart, but also on seeking opportunity through differentiation of symptoms and signs. It pays attention to the correlation between heart and stomach, spleen, liver and kidney, seeking causes through differentiation of symptoms and signs, and examining the causes of herb use.