Optimus's new flight attachments (specifically the colors and details of his wings and gauntlets) are based on God Ginrai's flight-endowing Godbomber components. The flight pack itself, to which the wings attach, doesn't seem to owe as much to the Masterforce character, appearing instead to resemble booster pack from the original Jetfire (and thus, the FAST Packs from Super Dimension Fortress Macross). His shoulder cannons also appear to be based on his Voyager-class toy's water blaster.
Ratchet once again harps on the fact that "Autobots don't fly", a common if frequently broken rule throughout most of the Transformers fiction, before being confronted with the harsh reality.
This is not the first time that an Optimus has taken up a huge, Matrix-related melee weapon for the final battle against a Megatron.
Real-world references
Trivia
Megatron purposely started the Shockwave/lugnut feud, knowing Starscream would try to seize Omega Supreme's access codes, just to be sure Lugnut would be in his most loyal state at the moment of the transfer? Now, that's some sleeky fore-thinkings...