This study aimed to analyze and design the information system for transportation costs analysis at M Transportation Co., Ltd. Methods for analyzing the information system were specified to the interview with 2 administrators, 3 supervisors and 10 logistic support officers to identify scope of problems and the review of work system through operating documents and forms to define the needs of information system, which later on, shall lead to the design of information system for transportation costs. The findings presented that the current calculations of transportation costs were found in total cost and average cost per trip formats. The administrators and operators needed the new system, which included the calculations of average costs per trip/kilometer/ton, the cost per a truck, and the cost per different types of vehicle. They also needed the automatic transportation cost calculation program to replace the calculation on Excel program. The results, as based upon the economic feasibility hypothesis, showed that if the automatic transportation cost calculation program was applied, the payback period could be defined within 1.51 years and the Initial Rate of Return (IRR) per 2 years was equal to 21%, which suggested that this project was worthwhile to invest. The results of this study, which originated from the certain operation of operators and true needs of administrators, shall provide benefits to M Transportation Co., Ltd., particularly in terms of information system development. In addition, the results would also be considered as the basic information for information system planning and transportation costs calculating, which could be developed to the transportation cost calculation program. Outcome of this study would ensure the proper design and development of the system in principle, which could respond to the integral and direct implementation under the proper cost and the worthwhile investment.