For years, the four realms of Gamindustri—Planeptune, Lastation, Lowee, and Leanbox—fought a pointless war over Share energy, the power that goddesses draw from their people's faith. At last, the four ruling CPUs signed a friendship treaty, banning any military attempts to claim Shares, in hopes of bringing peace and prosperity. However, one month after the treaty, Neptune, the CPU Goddess of Planeptune, spends her time slacking off and playing games instead of doing her duties, causing her realm's Shares to plummet.
Choujigen Game Neptune The Animation follows Neptune and her friends as they try to raise Shares while confronting an external threat that could spell the end of both the Goddesses and Gamindustri itself.