In order to deduce an objective evaluation method of motion seasickness incidence (MSI) by ship motions during underway in irregular waves and to present the fundamental data of passenger comfort on the yacht and the passenger ship according to the result, the MSI of the trainees by the questionnaires was analysed and compared with the rate of variation of salivary a -amylase activity (VSAA) on the training ship "A-ra ho" of Jeju national university. Relationship between rate of variation (x) by salivary a -amylase activity and motion seasickness incidence (y) was described by the equation, MSI(%) = 0.6073 x + 12.189 including the correlation coefficient (R 2 = 0.9853). The result obtained through the rate of variation of salivary a -amylase activity which was the quantitative evaluation method for ship motions causing seasickness was most affected by z-vertical acceleration and occurred within the frequency range 0.1 to 0.3Hz centered on 0.2Hz, and the simulation result based on this finding showed the motion seasickness rate at approximately 4% lower than the rate obtained through the survey.