So it does not contain CFW softwares like FBI or Twilight Menu++?The Nintendo 3DS folder on the root of the SD card contains all of your installed content and album.
Deleting it will remove all currently installed titles (that aren't in Nand) and your photo album.
However, it will not remove your CFW.
It will remove them if they are installed on the SD Card, but not the CFW itself.So it does not contain CFW softwares like FBI or Twilight Menu++?
If you installed any homebrew as a .cia then yes deleting 'Nintendo 3DS' will remove them.So it does not contain CFW softwares like FBI or Twilight Menu++?