The file "ignore_my_docs" is a hidden file, so you must to set your file explorer to see hidden files. You can do that with the PC file explorer.
I think you have another problem, because I store my eBooks (*.pdf) under "My Documents\eBooks" in the CF card.
How deep can you go with the path for most application ? I find that most application can read files in folders under My Documents, but not more levels of subfolders.