Sometimes when I drop beans in my house, the drop action completes, then they go underneath the floor and down into the ground. I can't find a way to reproduce it beyond trying many times. Picking them up again isn't a problem.
I saw this happen in a street during the game. Clicking and dragging the items to the inventory was possible, but there was no way to get your character near them, as they were right at the bottom of the screen, below the scenery. Both meat and beans were present in the same location.
I had a similar issue while mining. Because I had no space left in my bag the gem I found fell to the ground. Unfortunately, I wasn't able to pick it up. It was stucked in a lower non-accessible area. This happended somewhere in the mines.