A manufacturing method of a honeycomb structure that can improve a manufacturing efficiency and a raw material yield is provided. There is provided a manufacturing method of a honeycomb structure comprising: subjecting a raw material to extrusion forming to form a honeycomb formed body 100 having a partition wall that partitions a plurality of cells that serve as flow paths for a fluid and are extended from one end surface to the other end surface; forming a plurality of notches extended in a direction along which the cells are extended in the honeycomb formed body 100 to form a partial segment aggregate 120 in such a manner that a plurality of partial segments 3 are partitioned; and forming a buffer portion 5 between respective partial segments 3 adjacent to each other in the partial segment aggregate 120 to fill an entire space between the respective partial segments adjacent to each other, thereby obtaining a honeycomb structure 130.