Still doesn't work for me, just put it in the main folder? Nowhere specifically?
If you have a PC:
Open the patch and extract, choosing the "(EC)TheApothecary-0.7b_PE-pc" folder. It
should ask if you if you want to overwrite the file. Choose yes.
If it doesn't ask you to overwrite, you're selecting the wrong folder. Once that is done, you should be able to start the game.
If you have a MAC (which I don't have, so this is just looking at file names):
Open the patch and extract, choosing the "(EC)TheApothecary.app\Contents\Resources\autorun\" folder. Again, it should ask you if you want to overwrite - or whatever MAC does when you're about to. I simply don't know. Once that is done, you should be able to start the game.
If you have further troubles, let me know and I can try to help some more.