Don't know if someone already mentioned this but, I can not pick up the empty bottles at all. In the tutorial, the game states that you hold down LMB to interact with items. In order to pick up things, you can click 1 - 10 or the mouse wheel. I have tried this and nothing has worked.
Despite this, the game is very cool and this will not stop me from playing it but it does seem necessary to mention the possible bug in case it becomes game breaking.