After buying the control and looking at the source I was able to figure it out (it was pretty simple, I just didn't fully understand how css worked).

If you want to have two menu's with different styles call setup twice with one of the calls setting the className config variable:
DynarchMenu.setup('menu'); DynarchMenu.setup('menu2', {className: 'menu2class'}

Then in your skin-menu-xxx.css file you can then change the style of the second menu by statements like:
div.menu2class
{
background-color: #00FFCC;
}
div.menu2class table tr td.active
{
background-color: #FF0000;
color: #800040;
} etc.

Thanks again... best menu control I have seen.