Go to the Steel Palace and kill the Emperor (who actually is a supercomputer) by formatting it.
Enter the Steel Palace and enter the room behind the throne room and use Repair to disable the force field. Interact with the supercomputer and hack into it (neither password option is correct). Under the diagnostics menu, select the option to format the machine and confirm the action. Then, return to AHS-9 for your reward.
Alternatively, since AHS-9 is not aware that the Emperor is actually a computer, killing Ken Lee will suffice to complete the quest.
Regardless of which of the two options is chosen, almost everyone in San Francisco will become hostile.
The tanker needs fuel ·The navigation computer needs the NavComp part to work ·You need to use a FOB to access the navigation computer ·Kill the Shi Emperor ·The Hubologists need plans for a vertibird from Navarro ·Steal the vertibird plans from the Shi ·The Hubologists need fuel for their spaceship ·Kill Badger so the tanker vagrants will embrace the Hub ·Kill the AHS-9 ·The Shi need plans for a vertibird from Navarro ·Steal the vertibird plans from the Hubologists ·Find Badger's girlfriend in the hold below the ship ·The Dragon wants you to take out Lo Pan - hand to hand ·Lo Pan wants you to take out the Dragon - hand to hand, if possible ·Get Chip's spleen ·Get some hardened power armor from Crockett ·Get the vertibird plans for the Brotherhood of Steel