In this study, genetic analysis was conducted on the inheritance of qualitative traits, such as leaf color, flower color, seed size, and seed hardness, in the F₂ population derived from the cross between var. frutescens and var. crispa. As determined by the separation pattern of each trait in the F₂ population, F₂ plants with a green color were more common than those with a purple color on the leaf surface, whereas F₂ plants with a purple color were more common than those with a green color on the reverse side of the leaf. For flower color, more F₂ plants were observed to have a white color. For seed size, more F₂ plants were observed to have a seed size of above 2 mm, and for seed hardness, more F₂ plants were observed to have characteristics of seed hardness. Our examination of the genetic separation ratios with respect to Mendel’s law of genetics revealed that three traits, leaf color (surface and reverse side) and flower color, did not follow the separation ratio of 1:2:1, and the seed size did not follow the segregation ratio of 3:1, but seed hardness was found to follow the separation ratio of 3:1. The results of this study are expected to provide basic information to help understand the genetic segregation of leaf and seed characteristics in the F₂ population derived from the cross between var. frutescens and var. crispa, and also to provide useful information for breeding studies to assist the development of varieties of Perilla crop.