Comment 4 for bug 594674

This also affects me. I have many directories (Music, Pictures, Videos, Downloads, Documents, etc.) in my homedir that are bind mounts of directories on another partition. If I delete a file with nautilus, inside, say, ~/Music, it is put in /ext/Music/.Trash-1000, but doesn't show up in the system trash dir. I have to manually delete everything in these directories periodically, to reclaim space.

I see this is also an upstream bug, but it seems the discussion there mirrors my own concern, that nautilus should at least show a message and provide a "Delete permanently" option instead of trashing to a folder I wouldn't otherwise see.