If I have a primary group say color and under color I have red, green, and blue and then I have 3 conditional groups for trim color (red item trim, green item trim, blue item trim) and under each trim group has silver & gold.  When I check out after picking, lets say red for the primary and silver for the red item trim.  It shows all hidden conditional groups with a selection under it even though they are hidden and not just the ones that were selected. Even shows all of them on the confirmation invoice.  Hope im clear :)

I went to your sample page and recreated the same issue. I selected a t-shirt, cycled thru the colors with the main selection of sm, med, lg, and it reproduced the same issue. when you add to the cart and look at the check out its description is T-Shirt, Sizes=Large, Sm Colors=Grey, Med Colors=Rised, Lrg Colors=Orange. This will not tell me what was actually selected. It needs to show only what is selected and hide the rest.