Comment 77 for bug 392204

I struggled with this problem for many days. I am running Ubuntu12.04 on a server and dual RAID1 setups with dual 2TB disks in each. Disks are formatted with NTFS and are used with samba for windows files storage.

A week ago our system started running slow after moving some files. Results of the 'top' utility shows 99% CPU assigned to mount.ntfs-3g. Despite several reboots same problem.

The solution that worked for me was to umount the affected drives and run ntfsck on them. The utility reported the drive was dirty. To fix the dirty flag I run ntfsfix -d /mnt/... and then rechecked using ntfsck.

After the dirty flag was cleared the system is back to normal.

Hope this helps anyone else with the same issues.