I have door surrounds for my soft top-so this may not be exactly the same. I have the Bestop upper replacements and the glass sliders as well. As Inferno girl mentioned they can be bent/adjusted to "fit".
The Quadratec magazine used to have directions but I have been ordering on line so don't know if it is still in there. It used to be in the section under the "advisor" so that you pick the right top for your rig............... Basically you put the upper doors on and with the door open, brace your hip or leg against the lower and pull/bend the upper in the direction to allow the door to close easier.
After I fit my replacement upper doors (sliders and plastic) to the factory soft top I had to "readjust a little" when using wrap -around- jammer/bikini top, and again when I got my halftop. Hope this helps.