I create a workspace, I save it. After a few days, the workspace disappears - including the worksapce I saved. Again, this is AFTER SAVING the workspace. There is nothing that I know that i am doing that is causing this. Any ideas?
That sounds like either a rights issue or some sort of "floating" user profile. IIRC the workspace files are stored in your C:\Users\user_name\AppData\Roaming\Adobe\FrameMaker\version\WorkSpaces\ area.