The high probability is that the top in the box was for the '02S which would be different from a '03-'04 top and structure. A '02 could have either the original plastic window or the glass window replacement. Never heard of a '03-'04 original or replacement with a plastic window. So which does yours have?
Most GAHH tops are for the older plastic window replacement market.
To be sure, see if there is a part number or some documentation that came with the GAHH top possibly in or on the box. That would establish which frame it was meant to mate with.
If intended for the plastic window '97-'02 frame, and you currently have a plastic big window, no frame replacement needed. A set of instructions
here.