We sought to elucidate the effects of different anticoagulation levels and the use of cardiotomy suction on the postoperative coagulatory and fibrinolytic systems in patients undergoing distal aortic perfusion using a fully heparin-coated (semi-)closed cardiopulmonary bypass (CPB) system incorporating a soft reservoir bag. Thirty-two patients were divided into two groups: those who underwent cardiotomy suction (S group, 18 patients) and those who did not (N group, 14 patients). We administered 1-2 mg/kg heparin in the S group, which achieved an activated clotting time (ACT) of 345 +/- 71 s. In the N group, we administered 0.7-1 mg/kg heparin, which achieved an ACT of 297 +/- 52 s. Data on platelet counts and serum levels of fibrinogen, antithrombin III, D-dimer, and fibrin degradation products (FDP) were collected, and factors influencing these variables were analyzed by multiple regression analysis. Both the patient group and the initial ACT level were independent factors influencing postoperative levels of FDP and D-dimer, whereas peak ACT level and the use of selective visceral/renal shunt/perfusion, but not the patient group, were independent factors influencing the postoperative platelet counts. In the S group, a significant inverse correlation was found between the ACT and levels of FDP or D-dimer, whereas no correlation was found in the N group. The use of cardiotomy suction was associated with elevated FDP and D-dimer levels even when a fully heparin-coated semi-closed CPB system was used. Lower ACT levels with the use of cardiotomy suction were associated with higher FDP and D-dimer levels, whereas such a relationship did not exist when cardiotomy suction was not used.