My character was able to sneak through the whole Arke Power Station without confronting any of the bots up until the AI core. After defeating the AI the computer consoles in other Arke Power Station locations still allowed the player to select the menu item: "[Hacking] Temporarily disable security system".
After successful hacking the outcome is that the now wiped out AI responds: "NOT BAD! BUT NOW I KNOW WHERE YOU ARE! HA-HA-HA!".
In my opinion this is a bug. If the AI is destroyed, it should not be able to override hacking attempts and send the still active bots to my location or at least I should not get insane AI responses any more for sure.