Looking further into this, it seems to have happened mainly to new files added 11 days ago, and it looks like the same happened a few months ago as I am finding old files. I currently have it set up where I have two Windows 8 machines both with 2 x 3tb drives in them and I have two sync's setup, Drive 1 to Drive 1 and Drive 2 to Drive 2 so we both always have the same file structure and files. Could something have happened where the software has messed up what files are the newest and is there any way of fixing these .!sync files?