Recently, application areas based on M2M (Machine-to-Machine communications) and IoT (Internet of Things) technologies are expanding rapidly. Accordingly, water flow and water quality management improvements are being pursued by applying this technology to water and sewage facilities. Especially, water management will collect and store accurate data based on various ICT technologies, and then will expand its service range to remote meter-reading service using smart metering system. For this, the error in flow rate data transmitting should be minimized to obtain credibility on related additional service system such as real time water flow rate analysis and billing. In this study, we have identified the structural problems in transmitting process and protocol to minimize errors in flow rate data transmission and its handling process which is essential to water supply pipeline management. The result confirmed that data acquisition via communication system is better than via analogue current values and pulse, and for communication method case, applying the industrial standard protocol is better for minimizing errors during data acquisition versus applying user assigned method.