Use web parts that either actions(BDC Data), custom columns(List), or spgridview control(Database), to establish links that provide a query variable to your dynamic page.  On your dynamic page, create a web part or embed server side code that creates a folder in each of your lists, document libraries, or wikki libraries.  Make sure that these folder are also assigned an id value to an id field(only can be do programmatically, no default UI for this).  Use the query variable given to arrange for a rootfolder query variable that navigates list web parts to their respective folders.  Modify any extraneous links through javascript, utilize cookies and redirects with a custom web part to hold id values despite application page navigation.  Well, I hope this helps, and good luck in the world of sharepoint!