Mecha Sonic achieves this Super Form by jumping on top of the Master Emerald and absorbing energy from the Emerald directly into a red power core in his chest. This transformation turns Mecha Sonic a golden-orange color, and makes him invulnerable to attack. He also gains the ability to hover at the top of the screen for extended periods of time. However, he is unable to sustain his power for very long and will soon revert to normal form and attempt to recharge.
In this form, Mecha Sonic attacks by spinning toward Knuckles' current position, firing three charged balls of energy. This seems to be the attack that drains his energy, although other attacks include trying to ram into Knuckles at full speed and using a spindash attack that aims where Knuckles is standing. He can only be damaged whilst powered down. Halfway through the battle however, the attack pattern completely changes and Mecha Sonic hovers at the top of the screen back and forth and stops to fire a series of thick damaging rings. He occasionally loses power for a split second, for unknown reasons, causing him to momentarily drop. This is Knuckles' chance to attack, but he doesn't even touch the ground so you only have a few seconds before he powers up again.
If Knuckles has collected all of the Chaos Emeralds (and, if playing Sonic 3 & Knuckles, all of the Super Emeralds), then Super Mecha Sonic is totally destroyed at the end of the boss battle. However, if the Emeralds have not all been collected, Mecha Sonic reappears at the end of the credits, sparking and with glowing red eyes on top of the Master Emerald.
Because this boss was only ever intended to be fought by Knuckles, if you use Debug mode and use Sonic to fight him, the ending will glitch and a blue Knuckles will appear riding on the Tornado.
If you finish this fight as Tails via Debug mode, the ending will glitch again.
This is the first super transformation to be performed by a robot.
Super Mecha Sonic is also one of the two villians to successfully perform a super transformation (The other being Scourge the Hedgehog).