I just came across a similar problem today. The second control is configured as a VIEW control.
My main module has the container disabled and the content is left justified.
When the second view control is called, the container is displayed and the content is centered. This causes an inconsistent user experience. How can I get the second View Control to respect the main modules container settings
This is the code that calls the second control,
Response.Redirect(NavigateURL(PortalSettings.ActiveTab.TabID, "RetailReg", "mid=" & CStr(ModuleId))) and how it appears as a url to the user, ...Retdata/tabid/54/ctl/Regctl/mid/371/Default.aspx
This may solve the original posters issue as well.