The year is Harmony Year 0026
After the first documented mobile suit encounter about 20 years ago, the breed consisting of gigantic humanoid shaped machines is still largely a mystery to the majority of creatures in Equestria. But not to some military factions that stretch across this beautiful magical world.
One single noticeable human that contributes to this change is Martha Vist Carbine. She is a noble woman who works for a huge corporation called Anaheim Electronics, in her world that is called the Earthshepre. She has brought mobile suits to Equestria and introduced them to some Equestrian officials, after countless expeditions and meetings with Equestria’s government, she’s finally had a deal with the kingdom’s Chancellor, Black Wine.
However, one notable thing about him is he has a view that creatures from all over Equus are ruining Equestria, so his party is seeking a solution to kick every creature, other than the pony race, out of Equestria. In the mind of his party, called "The Ponykind", ponykind is the superior race in all of Equus and all other race must bow to them.
This is the reason why he Council of Friendship, although passes the contract, still make sure Anaheim selling mobile suit to some of Equestria’s allies as well as handing one of Black Wine’s ship to S.M.I.L.E, an organization that primarily hunting monster all over Equestria. When the Pegasus class ship Canterlot was commissioned into the S.M.I.L.E’s fleet, Lady Rainbow Dash, Minister of Defense, told the organization’s two director Sweetie Drop and Lyra Heartstring “S.M.I.L.E is officially hunting corruption now and make sure you treat the Canterlot well!”
But, a strange phenomena happened, which required S.M.I.L.E to solve it immediately.
Also as mysterious as how Martha Vist Carbine and her corporation ended up in Equus, there is a strange mobile suit that is just flying across the sky of Equestria. Every creature assumes it may come with “the mysterious mobile suits”. But no creature, not even S.M.I.L.E themselves, know why it was here, who it belongs to, and why it could fly for so long. S.M.I.L.E has classified the strange white mobile suit that leaves a five-color rainbow trail everywhere it goes as an unexplained magic phenomenon (UMP) and started research on it. Depend on Equestria's situation, they might want to store it far away or simply destroy the mysterious white MS that they called: Alicorn Gundam. But regardless of what outcome will happen, they have to capture it fast, because Black Wine have another plan in mind: he is currently running a secret military force within the Equestria navy that serve exclusively to him and his party, dubbed Unit 265. Their goal: to capture the Alicorn and use it as a weapon to force all other creatures out of Equestria and possibly, invade the kingdom's allied countries and stole their resource.
However, the event in which they have rescued a strange mobile suit that have a professional trained pilot in it (in the time when the creatures in S.M.I.L.E are still in training with humans and they still not professional enough), in the day when it was report to be the day of the first white MS encounter, have changed their minds.
After a month, when they considered that they had enough equipment that could help them catch the mysterious MS, the pilot waked up from his coma.