High cognitive workload decreases a driver’s ability of judgement and response in traffic situation and could result in a traffic accident. Electrocardiography (ECG) has been used for evaluation of drivers’ cognitive workload; however, individual differences in ECG response corresponding to cognitive workload have not been fully considered. The present study developed an evaluation method of individual driver’s cognitive workload based on ECG data, and evaluated its usefulness through an experiment in a driving simulator. The evaluation method developed by the present study determined the optimal ECG evaluation condition for individual participant by analysis of area under the receiver operating characteristic curve (AUC) for various conditions (total number of conditions = 144) in terms of four aspects (ECG measure, window span, update rate, and workload level). AUC analysis on the various conditions showed that the optimal ECG evaluation condition for each participant was significantly different. In addition, the optimal ECG evaluation condition could accurately detect changes in cognitive workload for 47% of the total participants (n = 15). The evaluation method proposed in the present study can be utilized in the evaluation of individual driver’s cognitive workload for an intelligent vehicle.