I am using File (Field) Paths 7.x-1.0-beta3 and have my Image field on my Basic Page content type configured to upload to the images/page directory in my files directory.
However, whenever I upload an image, it just goes into the root of the Files directory. I did have File Field Sources enabled, but have since disabled it, cleared cache, and restarted the server, and this problem is still happening. :(
EDIT: As an additional note for completeness, I also previously had the Media plugin enabled, but have also since disabled it since I thought maybe it was causing File (Field) Paths not to work. But, as noted above, even with Media and File Field Sources disabled, the issue still occurs.