Perhaps it's better if you first explain how files can be deleted, restored or moved incorrectly.
Aw, give me a break. I'm not smart enough to know that.
I'll say this. When I first started running Mint 13 Cinnamon last year, my first Linux ever, I was cleaning my hdd one day. Deleting and moving files to new folder etc. In Windows xp I would always hold down the ctrl key, highlight multiple files, then delete or move a bunch at once. I did the same in whatever the Cinnamon file manager was. I got error messages similar to : the file already exists, do you want to overwrite? This was last year. I don't remember exactly. Maybe the ctrl key doesn't work exactly as in Windows. I quit highlighting multiple files and did one at a time. That worked.
EDIT: Now that I have had a minue to recall, here is what was happening. I was moving all the .pdf files from my downloads folder to a new pdf folder. If I saw 3 in a row I'd highlight those 3 then right click and move to new folder. That was OK. Scroll down a bit and see 5 in a row. Highlight those 5 and do the same. That's when I got the error. The last of the 3 files moved prior was not purged and was included in the new 5, hence the do I want to overwrite it.
i5 3570k, ASRock z77 Extreme 4, 8 Gb Ripjaws 1600, Antec 430w psu, HVR 1600 tv tuner, custom case- marble top, oak face. Carver & DCM Time Window sound system. Mint 14 KDE.