The video below shows you how to take out Dr. Hypatia in Dishonored 2 by Non-Lethal means (in Mission 3). This will let you cure her instead of killing her. It also unlocks the trophy Counter-serum (Chat with Dr. Hypatia aboard the Dreadful Wale)
Mission 3 – The Good Doctor
During this mission one of your main objectives is to talk to Dr. Hypatia. To get the trophy you must cure her by crafting the anti-serum. DO NOT KILL HER! If you kill her you cannot get the trophy.
When you talk to her in the morgue check for a dying patient in the back of the room. He gives you a side quest and the combination to a safe. Grab the counter-serum formula from the safe and craft it. Then inject it into Dr. Hypatia by doing a non-lethal takedown on her (R1 on PS4 / RB on XB1).
Finish the mission and you will be aboard the Dreadful Wale (your ship / hub area). Now talk to Dr. Hypatia on the ship to earn the trophy.
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