In general, geotechnical properties have many uncertain aspects, thus probabilistic analysis have been used to consider these aspects. It is, however, quite difficult to select an appropriate target probability for a certain structure or construction process. In this study, minimum expected cost design method based on probabilistic analysis is suggested for design of vertical drains generally used to accelerate consolidation in soft clayey soils. A sensitivity analysis is performed to select the most important uncertain parameters for the design of vertical drains. Monte Carlo simulation is used in sensitivity analysis and probabilistic analysis. Total expected cost, defined as the sum of initial cost and expected additive cost, varies widely with variation of input parameters used in design of vertical drain systems. And probability of failure to get the minimum total expected cost varies under the different design conditions. A minimum value of total expected cost is suggested as a design value in this study. The proposed design concept is applicable to unit construction process because this approach is to consider the uncertainties using probabilistic analysis and uncertainties of geotechnical properties.