@rash.2mk
Have you read the page in the wiki aboutclearing up the root fs?

Also, most of the stuff the contents that is supposed to be in /root is "hidden" i.e. the folders are preceded with a dot. If you open the terminal and type
ls /root
- are there many files/folders?
To view all, type
ls -a /root
- there should be quite a big difference!

Anything that looks like a file save by you, as opposed to one automatically created by a programme should be deleted/moved out of there. Incidentally, it might be better to use a file explorer to actually do the clearing up. For example I accidentally recorded a video to the root directory because my iplayer scripts were root-access only so I had lots of warnings but eventually tracked down the problem.

If you want to remove currently installed software, remember to purge packages using dpkg, not just apt-get remove. And, to really tidy things up remove the conf files et-al from the /etc folder and the like.

I'm sure it's just a matter of house-keeping so don't panic!