I ran into a bug that may be the same as yours :

My data is on a different partition than the system.
I use symbolic links in the ~ directory to access these files.

e.g. /home/me/Download is a symbolic link to /media/DATA/me/Download/

When I try to delete a file from the Download folder, accessing it
through the symbolic link, I have a message that says (I translate)
'unable to move the file to the trash do you want to delete it
completely ?' or (using Thunar on Xubuntu 16.04) **"invalid cross-device
link"**

This is the same whether the data partition is EXT4 or NTFS formated.

When I access the file directly from the /media/DATA partition I can
move it into the trash normally.

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https://bugs.launchpad.net/bugs/1612708

Title:
  Symbolic Link does not work in 16.04 LTS as in 14.04 LTS

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