This is a re-edit, because no one seems to want to answer the actual question.
To simplify: Will a non-root backup save everything? Do I have to log in as root to copy sbin, home, etc to a backup disk?
Thanks for all the answers on logging in as root, but that wasn't the problem.
sudo
. Using a "root" on Linux is a small security risk and does not correctly log usage of the person doing something on your system. Withsudo
all account actions are registered to your admin account, – Rinzwind Mar 22 '18 at 15:05