Genetic variability and the relationship between agronomic characters have an important role in the development of high-yielding soybean varieties. The aim of the research was to study the genetic diversity and the closeness of the relationship among the agronomic characters of soybean lines in tidal swamp land. The results showed that broad genetic variability was found in the number of branches and seed yield, while the other characters had narrow genetic variability. Individuals in the family are relatively evenly distributed. Based on the PCA biplot, the contribution of agronomic characters was in the similar direction as seed yield, except for maturity. However, there were no characters that are significantly correlated with seed yield. Significant phenotypic correlations were obtained among the number of filled pods, plant height, the number of branches, and the number of reproductive nodes. Almost all of the high agronomic characters belong to the Dh/Arg progenies. The highest seed yields were obtained by Dw/Arg-7 and Dw/Arg-12, namely 2.49 and 2.41 t/ha, respectively. The lines with high seed yield potential were also shown by the Gjs/Arg and Sh/Arg progenies. Dw/Arg-7 and Dw/Arg-12 can be assessed in plant breeding process to obtain high yielding soybean varieties adaptive to tidal swamp areas.