Daroth, are you talking about those icons that you see in the main menu when you need to scroll up and down with the analogue stick?
Because those icons were always there in both the Xbox and Gamecube versions I had, they were just adjusted to look HD and for 360 controllers.
EDIT: Just checked my Gamecube copy to check and the icons are definitely there and you absolutely can not use the D-pad in the main menu in the original version.
Even though they could have easily fixed it, it was already like this in the original. So you can't really call it sloppy porting.