Objective To observe the changes of molecular markers of prethrombotic state (PTS) in coronary artery disease (CAD) patients with diabetes mellitus (DM) undergoing coronary agioplasty. Methods Thirty-two patients with CAD (group A) and twenty-four CAD patients with noninsulin-dependent diabetes mellitus (NIDDM) (group B) were chosen as objects undergoing coronary agioplasty, and molecular markers of PTS, lipid peroxide (LPO), endothelial function were measured before and 20 minutes, 24 hours, and 7 days after the opration respectively. Results There were significant changes of molecular markers of PTS, LPO, and endothelial function in both groups after the opration, but the changes were even more pronounced in group B. It was on the 7th day that there were still the changes in group B, whereas the changes were prone to the levels of pre-opration in group A. Conclusion There was a series of significant changes of molecular markers of PTS, LPO, and endothelial function in CAD patients after the angioplasty, and the changes were even more pronounced in those with DM.