You can have your top menu generated automatically or specify the exact nodes you need it to include. If you set it to generate automatically, you can still control what gets displayed via the "hide from menu" page option.
You can also control what links display on the two columns of your footer.
You can have a page automatically redirect to its first child page or to a page you specify
Finally, you can change the URL part for a given page as well as specify alternate URLs.