Characters on Mega Man's side

Nick Fury, Mega Man, Proto Man, Eddie, Rush, Darci Roll, Supergirl, Black Panther, Wolverine, Storm, Shadowcat, Rogue, Professor X, Ice Guy, Phoenix/Jean Grey, Beast, Cyclops, Angel, Nightcrawler, Mr. Fantastic, Invisible Woman, Harley Quinn, Deadpool, Cat Woman, The Thing, Human Torch, Spider-Man, Iron Man, War Machine, The Penguin, Cyborg, Captain America, Batman, Black Canary, Robin, Black Widow and Hawkeye

Neutral

Lex Luthor and Mercy Graves

Characters on Wily's side

Dr Wily, Bass, Treble, Callisto (until the end), Pyro (until the end), Magneto (until the end), Lady Deathstrike (until the end), Dr. Doom (until the end), Electro (until the end), Green Goblin (until the end), Dr. Octopus (until the end), Bane (untol the end), LexCorp's T7 (defeated), Burst Man (defeated), Cloud Man (defeated), Junk Man, Freeze Man, Slash Man (defeated), Spring Man (defeated), Shade Man, Turbo Man, Blizzard Man, Centaur Man (defeated), Flame Man (defeated), Knight Man, Plant Man (defeated), Tomahawk Man, Wind Man (defeated), Yamato Man (defeated), Guts Man (defeated), Titanium Man (defeated), Dyna Man (defeated), Quick Man, Mecha Dragon (defeated), Snake Man (defeated), Spark Man (defeated), Pharaoh Man (defeated), Charge Man (defeated), Skull Man (defeated) and Gyro Man (defeated)

Robosaur mini-bosses; Nyasasaurus (defeated), Cynognathus (defeated), Mastodonsaurus (defeated), Asperoris (defeated), Stenaulorhynchus (defeated), Silesaurus (defeated), Ctenosauriscus (defeated), Rauisuchus (defeated), Erpetosuchus (defeated), Thecodontosaurus (defeated), Kannemeyeria (defeated), Stahleckeria (defeated), Shansiodon (defeated), Placerias (defeated), Giant Robo-Spider Crabs (defeated), Giant Robo Lobsters (defeated), Herrerasaurus (defeated), Diademodon (defeated), Nothosaurus (defeated), Placodus (defeated), Tanystropheus (defeated), Cymbospondylus (defeated), Prestosuchus (defeated), Leedsichthys (defeated), Metriorhynchus (defeated), Hybodus (defeated), Liopleurodon (defeated), Hesperornis (defeated), Squalicorax (defeated), Xiphactinus (defeated), Halisaurus (defeated), Bonnerichthys (defeated), Pteranodon (defeated), Elasmosaurus (defeated), Archelon (defeated), Tylosaurus (defeated), Platecarpus (defeated), Globidens (defeated), Mosasaurus (defeated), Cretoxyrhina (defeated), Cretolamna (defeated), Coelophysis (defeated), Plateosaurus (defeated), Cetiosaurus (defeated), Diplodocus defeated), Dryosaurus (defeated), Othnielosaurus (defeated), Ornitholestes (defeated), Stegosaurus (defeated), Allosaurus (defeated), Brachiosaurus (defeated), Eustreptospondylus (defeated), Cryptoclidus (defeated), Ophthalmosaurus (defeated), Ichthyosaurus (defeated), Shonisaurus (defeated), Plesiosaurus (defeated), Tapejara (defeated), Ornithocheirus (defeated), Iguanodon (defeated), Polacanthus (defeated), Kronosaurus (defeated), Deinonychus (defeated), Megalosaurus (defeated), Koolasuchus (defeated), Deinosuchus (defeated), Leaellynasaura (defeated), Muttaburrasaurus (defeated), Edmontosaurus (defeated), Ankylosaurus (defeated), Dromaeosaurus (defeated), Quetzalcoatlus (defeated), Thescelosaurus (defeated), Triceratops (defeated), Parksosaurus (defeated), Torosaurus (defeated), Tyrannosaurus Rex (defeated), Apatosaurus (defeated), Therizinosaurus (defeated), Velociraptor (defeated), Tarbosaurus (defeated), Protoceratops (defeated), Mononykus (defeated), Saurolophus (defeated), Azhdarcho (defeated), Argentinosaurus (defeated), Giganotosaurus (defeated), Hypsilophodon (defeated), Sarcosuchus (defeated), Abelisaurus, Camarasaurus, Brontosaurus, Carnotaurus, Ceratosaurus, Oviraptor, Corythosaurus, Cryolophosaurus, Dilophosaurus, Dicraeosaurus, Ornithomimus, Struthiomimus, Gigantoraptor, Kentrosaurus, Lesothosaurus, Maiasaura, Monolophosaurus, Ouranosaurus, Pachycephalosaurus, Parasaurolophus, Pentaceratops, Psittacosaurus, Sauroposeidon, Spinosaurus, Stegoceras, Styracosaurus, Baryonyx, Tenontosaurus, Zuniceratops, Nyctosaurus (defeated), Sinovenator, Titanosaurus, Troodon and Albertosaurus

Mega Man 7: Return of Wily (19th July 2070) (A year and three months after Wily's defeat from the first event of Mega Man 7)

After defeating the previous robo mini-bosses and robot masters, Abelisaurus, Camarasaurus, Brontosaurus, Carnotaurus, Ceratosaurus, Oviraptor, Corythosaurus, Cryolophosaurus, Dilophosaurus, Dicraeosaurus, Ornithomimus, Struthiomimus, Gigantoraptor, Kentrosaurus, Lesothosaurus, Maiasaura, Monolophosaurus, Ouranosaurus, Pachycephalosaurus, Parasaurolophus, Pentaceratops, Psittacosaurus, Sauroposeidon, Spinosaurus, Stegoceras, Styracosaurus, Baryonyx, Tenontosaurus, Zuniceratops, Sinovenator, Titanosaurus, Troodon and Albertosaurus under the commands of Junk Man, Freeze Man, Shade Man, Turbo Man, Blizzard Man, Knight Man, Tomahawk Man and Quick Man. All those heroes together defeats those robots, then they're also defeating Supervillains who aligned with Wily. A moment later, Mega Man along with Rush meets Bass and Treble.

"Hello Mega Man, it's a while ago" as Bass says to him.

"Yes, it was. But why are you scaring the people if they're not listening to you?" as Mega Man says to him, plus asking him.

"Because of the people needs to listen carefully about our survival of our mechanical race of robots. If you don't agree with us, come and fight me" as Bass says to him.

"Okay, I'm prepared" as Mega Man says to Bass.

Mega Man confronts Bass, then wins over him.

Later, when Magneto heard from Bass that they're struggling for robotical survival, also when whispered to Mega Man that they also fear Supervillains. Now, because of that, Magneto ordered his supervillains to turn against Wily, and be allied with members of "The Justice of Superhumans" organization. When this happens, Superhumans and Magneto (plus his friends as well) along with Mega Man and Proto Man defeats Wily, Bass and Treble.

After defeating Wily, all of those superheroes returns back to their league's home, while Magneto and his friends becomes Neutral... for now.

Mega Man 7: Return of Wily; THE END