Mu 2065, Earth ili pakatikati pa nkhondo ndi alendo owonjezera otchedwa Nova. Asitikali akupanga ndi kuphunzitsa Pandoras, ana aakazi omwe atha kugwiritsa ntchito minofu yapadera yotchedwa Stigmata (Seikon) Kuti awonetse zida komanso luso lapamwamba kwambiri lankhondo. Othandizira a Pandora ndi amuna anzawo otchedwa Limiters, omwe amagwiritsa ntchito mphamvu "yozizira" kuti aletse mpikisano wawo.
Aliyense wa awa oletsa malire ndi Kazuya Aoi, yemwe mlongo wake womaliza anali Pandora. Kazuya amakumana ndi a Pandora olimba, Satellizer el Bridget, otchedwa Mfumukazi Yosavomerezeka, pamawonekedwe ake osasangalatsa komanso kuwopa kwawo mopitilira muyeso pomwe amapita ku West Genetics Academy ku Japan. Ngakhale anzawo akumasukulu akumuchenjeza kuti apatuke pa Satellizer, ndi bwenzi la Kazuya, ndipo akumupempha kuti akhale Limiter wake. Satellizer akuvomera kuti azicheza naye, ngakhale atangofika kumene pampikisano wachikondi wotchedwa Rana Linchen, yemwe amakhulupirira kuti Kazuya ndi mnzake atamuthandizira pomenya nkhondo zingapo motsutsana ndi omwe amatsutsana nawo pakoleji pakusintha maudindo ndi maphunziro. Pamene a Novas amenya koleji yawo pogwiritsa ntchito a Pandoras omwe akuwayang'anira kuti athe kupeza labotale yapansi panthaka, mpikisano wawo umatha.
Satellizer ndi Kazuya aphatikizira ophunzira ochepa a West Genetics kupita ku labotale ku Alaska, komwe atha kukhala kuti athandizire limodzi ndi ntchito ya Evolution Pandora (E Pandora), kulola azimayi abwinobwino kuti apange ma Stigmata kuti akhale Pandoras. Wina pakati pa E Pandoras atapsa mtima, enawo amatulutsa ngati mankhwala omwe akuyesedwayo siowopsa, koma amapangidwa kuti azimvera zofuna za bizinesi komanso manejala. Atazindikira kuti mpaka atagwiritsidwa ntchito, agwiritsidwe ntchito, a E-Pandora Amelia Evans akuwongolera kuwukira komwe kumakulira kwathunthu pa Nova Clash.
Kazuya amaphunzira zambiri zamalumikizidwe a banja lake kupita ku Nova komanso Pandora. Agogo a Kazuya a Gengo Aoi adapeza ntchito yomweyi, yomwe imakhazikitsa Rana ndi Satellizer kukhala gulu lapadera ndi azimayi otchedwa Valkyries. Komabe, pakuwonetsera konse komwe kwapangidwa ndi Nova wopangidwa mwanzeru, zabodza zimachitika ndi a Pandoras, komanso dummy Novas amakhala gulu lankhondo la 100 la Nova lomwe limawononga ma genetics. Gengo amawerengera izi potulutsa Pandoras Wodziwika yemwe ndi azakhali a Kazuya. Kuyesetsa kwa Chevalier kupha Gengo pogwiritsa ntchito omangidwa angapo otchedwa Busters, pomwe ochepa a Pandoras a Legendary amasintha kukhala ma Novas owopsa, koma ntchitoyi idatha.
