4.0.7 does not have a real central point to store where libs are located. (Each project has its own settings.) However there is a global search path. (eeschema->preferences->component libs, bottom part of this dialog does tell you this. One of the default options is /usr/share/kicad/library/)
So if you install the libs in there they will be found.
Download the libs that normally come with 4.0.7 from: https://github.com/KiCad/kicad-library/releases. With install i mean copy the .lib and .dcm files you downloaded directly into this directory.
New projects get their list of libs (and additional search paths) from the template project. (normally located in usr/share/kicad/template/kicad.pro)