This is likely a CSS Issue. I have dozens of examples just haven't had time to publish them in a tutorial but you are welcome to take a look at some code examples I did for these projects.
http://www.mendyourmortgage.com (code in the template already)
http://visaliahomesforsale.com (code in the template already)
Some templates like those they used in the last two examples came with the suckerfish code already in place. All I did was open the style.css file and change the UL ID being referenced in the menu to that of the menu creator prefix which is #mc_menu_1
I've also created a basic guide on the CSS coding here at http://www.jaredritchey.com/tutorials/menucreator/
I'll get some code examples published later this week.
For now feel free to contact me and I'll help where I can.