Drupal local configuration clone. Only home page is accessible
I did face with a similar problem when moving my site from local machine to dev server. but here is what i did


Install Backup and Migrate to download the existing database and Backup and Migrate Files to your local drupal installation.
Go to http://local-site/admin/config/system/backup_migrate and then backup the default database and local files to download






Install fresh copy of drupal with new database at the server(or to the location where you are cloning.
Copy from http://local-site/sites/all/modules and http://local-site/sites/all/themes to their respective directories at the server(or your cloning destination)
Enable both the modules in step 1, from http://local-site/admin/modules
Go to http://cloned-site/admin/config/system/backup_migrate/restore and restore the database and local files by browsing for the exported data at step 2



and don't forget to enable the theme which you used on the local-site before using backup and migrate.