If you do not want a page that you create to appear in the main menu, you can hide the page. You can use own customize links or navigation to access the page via direct URL mapping.
To hide the page, it can be done through WebSphere Portal XML configuration interface. You do this by setting the hidden flag for the page parameter for the content-node tag in XML. You can use the following XML snippet:
<request xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:noNamespaceSchemaLocation="PortalConfig_1.4.xsd" type="update" create-oids="true">
<portal action="locate">
<content-node action="update" uniquename="com.mypage" active ="true">
<parameter name="com.ibm.portal.Hidden" type="string" update="set"><![CDATA[true]]></parameter>
</content-node>
</portal>
</request>
Make sure the uniquename is correct. You can get further details here.
This is a lot of work to achieve a simple thing. Wouldn't it be great if there's an option at the page property to hide or show it in the navigation.