Anticoagulant macromolecules have gained widespread use in the clinical treatment of cardiovascular diseases, blood-contacting or implantable materials, and medical devices due to their excellent anticoagulant properties. Inspired by the molecular characteristics of physiological anticoagulants that play a vital role in normal human coagulation and anticoagulation mechanisms, diverse anticoagulant macromolecules with special molecular structures and functional groups have been developed, where they can be systematically applied to the biomedical field. In this Perspective, the history and the recent progress of synthetic methods for anticoagulant macromolecules obtained by purification of natural products, semisynthetic methods, and synthetic methods are discussed from the aspect of molecular design. The critical application and immense development potential of these anticoagulant macromolecules in the field of clinical treatment and biomedicine is proposed.