The admin/cli/install.php script still prompts the user for values such as the site short name, full name, admin email address, admin password even when it's run with the --skip-database flag.
This is confusing for the user because those values are only set as part of the database install. This means that when --skip-database is set the values aren't actually saved anywhere even though the user provides them.
Instead the user must set them again when running the admin/cli/install_database.php script or the admin can do it when the log into the site.
The install script probably shouldn't prompt the user for those values if the --skip-database flag is given.