A distress call from the PC Continent leads the goddesses to answer it while the CPU Candidates are left behind to investigate an abandoned laboratory. Suddenly, they awakened a grey CPU who in turn, traps them inside capsules that puts them into a deep sleep for two years. Once they reawakened, the candidates soon discover that Gamindustri has changed. The people have begun to rely on using a new smartphone called the rPhone, and the four nations have been terrorized by constant monster attacks known as Trendi Outbreaks. Even worse, the goddesses of Lastation, Lowee, and Leanbox have managed to return except for Neptune, who had disappeared altogether. Now it's up for the CPU Candidates and the three remaining goddesses to stop the outbreak and find Neptune, all while Nepgear goes to fulfil her responsibility as "Planeptune's final CPU".