Chp3 Eggman:

-Eggman is in Flying Battery zone. He's currently heading into Wiskite's city, so he's preparing the badniks to attack it! For a while, you just build/fix the badniks but after a while, the lights go out and Sonic.eye is hunting you, so Eggman has to go in the evacuation room. When he comes at the door of the room, it closes and Sonic.eye appears in front of you and Eggman dies.

Chp4 Wiskite: Oil Ocean act 1 - Emerald Hill act 2 - Death Egg act 3

-Wiskite is running back from a vacation (?) and he's aware of Eggman attacking his city. He runs in the abandoned Oil Ocean & the bloody Emerald Hill, where he finds a old teleporter to Death Egg zone. In Death Egg zone, it's still active, but empty, and there he finds Sonic.eye using the Chaos Emeralds. He's gonna use the chaos emerald to destroy the planet (?). There's also a different outcome! While running in the previous zones, you can find the Chaos Emerald in secret areas to fight back. When you fight Sonic.eye, he atks with copies of himself and eletrical circles.

When you 'defeat' him, you go to a good ending screen but after a while, Sonic.eye breaks it saying that there are no good endings.

I hope you likes this story concept for the game!