The fully customizable Announcement area for the portal is managed in the Brand settings (Settings -> System Settings -> Organization -> Brand and then the Announcement tab for the Brand), and it should only appear on the home page of the Portal. When you move to the KB, News or even the Community, that Announcement isn't displayed.
Therefore, I'm not sure what you mean by "not on the inner pages after logging in?"
Derek Curtis
COO
SmarterTools Inc.
www.smartertools.com