To sum it up, I guess NTFS is no longer "usable" for me. Just so many of unreliability and threats that makes it an unusable file system. I guess most users of MS products and OS#%@# doesn't know that their file INFO, NAMES, LOCATIONS, ORDER etc etc etc, are isolated and in the most idiotic way humanity came with , and that's in a death area Microsoft places on your HDD once getting fooled to proceed with one "Format NTFS" traps placed within Windows, which is MFT. MFT structure, like dependencies and even backups are faulty in countless ways, not to mention the very, very common ones like viruses, any error!, any power issues, any instability of system, any unsafe removal of an hdd etc! Then comes the rest of faulty parts that as well gets NTFS volumes screwed all the time just like the faulty MBR and boot record, luckily MBR is getting a mandatory replacement since +2 TB drives are common which MBR doesn't support, however I've read that "limited backward compatibility with MBR", those words looks scary already.
CHKDSK in my bad experience, googling and calculations showed me it works in near 0.0000001 of the time :\ yet all Linux applications, 3rd party windows applications (if it didn't embed CHKDSK) and other OS, are all suggesting you TO GO BACK TO MICROSOFT AND USE CHKDSK!
IMHO, if EVERY developer didn't found that NTFS is a malicious file system, they would've made their alternative/superior file system repair tools, and wouldn't prefer to send you back to MS and rather not hold responsibility (cursing) instead of MS. Or like myself you'll end up insanely backing up and editing the disk data in binary!!
So now after 2 volumes being fully screwed up in a year, and Google is filled with unexpected horror stories, so I've been considering a way for using EXT file system to my storage disks, or any other reliable file system, to save my files under Windows. So if I can have an additional tiny NTFS partition on every hdd I have, with a portable version of proposed "tool" that mounts the the rest of disk under NTFS/Windows (so it's usable across platforms), is there a tool that does a similar job? I'll be looking myself as well, so will post what I get.
Lastly would note that backups didn't save me much in both failures! as for some reason my HDDs failed in the wrong time, so I'd suggest taking incremental backups everyday or 2, then weekly or every 2 weeks full backups. As even a 3-6 month old backups proved to be a big lose if restored when it was an option.