Update some runtime configuration stuffs:
- refer to sections in the config files as [sectionname] (which
square braces) to help connect the reader visually with the
way those sections appear in the files themselves.
- document the 'password-stores' configuration (using a patch from
Nick Lewycky <nlewycky{__AT__}google.com> as a starting point).
- document that 'store-passwords' and 'store-auth-creds' are
deprecated from the 'config' file, and now live in the 'servers'
file.