Once you find the proof of Thelyron involvement, he runs away. You can find him in another place, later.
When Evelyn disappears - that means she went to her secret lab, so if you go there now you will probably find her there.

- In my case Aureus always refuses to arrest Esmeralda on account of lack of real evidence for it.

Evelyns backpack should be in the room with the patients.

My problem with it was that it is called a "pouch" - so i was searching for some kind of a very small - pouch. And it took me a while to even notice a small dark backpack on the cabinet.

At least that should be corrected. When that dialogue happens.