I'm absolutely brand new to DNN so I probably (definitely) shouldn't be attempting to answer a question, not to mention you most likely have it resolved by now, but what the heck.
It sounds like since you copied & pasted a container (same way I editied my first one) then you will have duplicates of the targeted elements inside the containers. In other words, although you've changed the name of the container (from CYT_menu to CYTsubmenu) If they share some css rules and if both are used on your page one of them will take precedence and give you unpredicted results. Perhaps 'a.normal' should become something like '.menu a .normal' and for the other '.submenu a .normal'?
If I'm giving terrible advice, someone will surely pop in and tell me so :)
-Jon