The three rush Brainiac and attack from two sides, but Brainiac deftly blocks and parries the punches and kicks. He then stands and lets his tendrils fight all three at the same time. Batman is picked up by the throat and Superman is pinned against the side of the ship. Batman's about to choke to death, but Brainiac then throws him aside as Superman flies towards him. Brainiac swats the Kryptonian away like a fly. Superman and Brainiac float towards each other...and Superman double axe-handles the robot to the ground where the back of his head meets Nightwing's knee.
Brainiac: Earth's time is up.
Superman and y/n: Where's Kara?!
Brainiac: Being vivisected. She has already taught me much about the nature of your powers.
Superman: Allow me to give you a proper demonstration!
Brainiac: I match your strength! YOU cannot match my intellect! You are only a Kryptonian of which I have killed BILLIONS!
And it's time for the MAIN EVENT! And, yes, Brainiac IS the superior intellect. Not to mention he has home-field advantage as his SHIP can attack, too. But, when faced with the destruction of his second home,Superman's strength CANNOT be denied, especially when Nightwing is at his side. It's as close as close can be but, by sheer will and power, Superman and Nightwing put Brainiac into sleep mode!
Superman: That was for Krypton!
Batman, rubbing his neck, joins them.
Superman: The attacks on the fleet are weakening him. I could feel him losing steam as we fought.
Batman: Good. Should make it easier to cut him off from the Betas.
Batman draws the disruptor and fires it at Brainiac, who lies there as if not believing he lost.
Meanwhile, elsewhere in the ship, Supergirl awakens to find herself shackled with Kryptonite cuffs to a table. A Beta marches towards her, ready to slice her head in two. Suddenly, the Beta falls to the ground...and the cuffs release Supergirl. She's weak, but she sits up, relieved that Brainiac has been defeated. Outside, the Beta ships lose power and fall from the sky.The ship essentially shuts down and Batman gets on the headset to spread the word.
Batman: This is Batman. Brainiac is down.
Cyborg: The disruptor worked! All the Betas are shutting down!
Superman: We did it! Now we find Kara... and... y/n?
y/n is missing.
Batman: Where the hell did he go?
The ship then starts to lurch.
Superman: What's happening?!
Batman: Brainiac's mind is the ships CPU. Apparently he doesn't have a backup system.
Sure enough, the ship starts to fall from space, heading for a crash landing on Earth.
Superman: If we crash, all the cities preserved onboard...
Batman: Destroyed.
Superman then turns to the control chair... and gets an idea. He sits in the chair and grabs two still-glowing tendrils.
Batman: Clark, wait!
Superman: You said yourself. This ship is controlled by pure thought.
Batman: This could KILL you!
Superman: Sounds like a job for me.
Superman jams the tendrils into his head, screaming as they attach to him. The ship drops into the atmosphere, aiming for Gotham- which had not been digitized yet. Batman holds on as Superman pours his thoughts into the ship, fighting against the programming Brainiac installed in it. Just as its about to turn Gotham into a crater just like Metropolis,...the ship veers and flies back up! Superman is still hurting from the sensation though.