Currently, in order to have the menu displayed inside a right/left panel you need to make one more step: add the menu page you created (e.g. Menu.MyMenu) to the list of right/left panels in the administration, e.g. Panels.Applications,Panels.Navigation,Menu.MyMenu.
I’m currently have similar issue. I have created a Menu Called ‘TestMenu’.
In the PanelWizard I add “Menu.TestMenu” to “A comma separated list of panels to display on the left column. E.g.: Panels.Applications, Panels.Navigation” so that it looks like this:
Panels.Applications, Panels.Navigation,Menu.TestMenu
Afterwards I save it with “Save Layout”. Do I miss something? (its the global wiki without using a subwiki)