We have developed a three-dimensional whole shape measurement system for automatic processing of marine and agricultural products in collaboration with Nikko Co., Ltd. This system is capable of measuring the three-dimensional whole shape of products of various forms, as they are carried on belt conveyors. Based on the measured shape data, the system can generate automatic processing data for cutting each product into equal-sized pieces. It can also handle various kinds of marine and agricultural products including defrosted and hence softened or frozen/distorted fish fillets with scales and pork ribs, which used to be difficult to measure with sufficient accuracy. It is expected that this system will contribute to the improvement of yield and productivity for processing marine and agricultural products.