Incase anyone is interested, here is the current installation manual if you purchase the backbone kit, stating 07 onwards:
An example of how the mounts don't totally contour to the hardtop, this is a centre mount and the least likely one to leak, but still, it shows how it just isnt a perfect contour on an 07 top. The front and rear mounts had similar amounts of air gap. Nothing a little black silastic wont fix.
Not so keen on spending around $750 to purchase the 3 racks, I made up my own. If you see on the previous pic of the roof mount you will see I had drilled and tapped extra mounting holes (2 x 8mm threaded holes) as I just wasnt happy with the single 6mm tapped hole the genuine rhino racks mount to. Primed and ready for black paint: