Fault with disk de-fragmentation on Windows 7 using various tools

"You should check your hard drive with chkdsk

Win + R
Type: cmd (and hit enter)
Type: chkdsk /F /R /X c: (and hit enter, replace the c in ""c:"" by the letter of your suspected drive)

If it needs to be runned at reboot, it will ask... And if you want to check results after a reboot

Win + R
Type: eventvwr (and hit enter)

In the windows journal ""Applications"", look for the latest entry for Winlogon and open it. It will have the information about what it found in ChkDsk. (If you are looking for a scan results that was run at a time other than bootup, you should find it in the same place, but instead listed under ChkDsk)

You could also use a tool like HD Tune: S.M.A.R.T. info & scan disk"

"May be worth considering other defrag tools such as degraggler(free) as well.
Another issue is you may have anti virus or similar which is scanning all the files as they have not flagged as scanned previously (MSE flags) or your particular AV does a full scan every time. Disabling any protection (and going off line and network physically) will ensure minimal delay as will letting the defrag proceed with no other processes running for maximum speed of operation.

Also check your power setting does not put your drive to sleep before the de-fragmentation has had chance to complete as that will flag as uncompleted when you reawaken your PC. By default your PC will want to sleep unless you have configured it otherwise. More frequent defragmentation is indicated as it should take minutes not hours anyway; you kill drives prematurely by running them fragmented as well as inevitably losing speed. Several data partitions and or drives are worthwhile to facilitate separation and less inherent fragmentation happening in the first instance. Hope this helps."