I encountered this as well, but I found a possible solution by accident. The directory I needed to copy from the remote Linux system was a "hidden" directory, and hidden dirs weren't showing on the remote window. I saw the item on the status bar on the bottom of the window saying there were xx number of hidden files. I clicked on that and started seeing hidden directories on *both* ends, which meant I'd now see AppData and could navigate into it.
- jelabarre59