Sometimes, adding a file/floder in the box or even saving a file cause a rollback of the open files.
Also, sometimes, saving a fil (by Crtl-S) have no "real" effect. The IDE show the file as "Saved" but if I do "cat the_file" in a terminal, it shows the previous version of the file. I think it's the cause of the first line issue.
I used CodeBox only with the current version.