PROBLEM TO BE SOLVED: To provide a method for producing seed-containing pomegranate fruit juice, the seed-containing pomegranate fruit juice obtained by using the method and pomegranate fruit juice-containing jelly obtained by using the seed-containing pomegranate fruit juice.SOLUTION: This method for producing the seed-containing pomegranate fruit juice comprises: a step of collecting cargo of the pomegranates and selecting the same on a belt conveyer a step of crushing the whole fruit of the pomegranates, removing the pericarp of the whole fruit of the pomegranates and leaving the fruit part consisting of flesh and seeds a step of separating the seeds from the flesh as to the fruit part, and squeezing the flesh to make the fruit juice a step of crushing the seeds until these seeds become particle-like form a step of sterilizing pomegranate-mixed liquid consisting of the particle-like seeds and the fruit juice a step of filtering for separately performing the filtration of the pomegranate-mixed liquid by two times after the sterilizing step and a step of heat-concentrating the pomegranate-mixed liquid after the filtration, where the filtration step comprises a first filtration of filtering by using a filter having coarse holes, and a second filtration by using a filter having a smaller hole diameter than that of the filter used in the first filtration.