Looks like I may have been totally off base with the windshield header rail. Looking at the owners manual, it looks like the soft top engages the same hooks on the windshield as the freedom panel latches.
I never did pay attention on mine. Pulled the soft top out as soon as I got it home and never put it back on, always ran with the hard top.
If you don't happen to have your owners manual anymore, here is a link for an electronic version https://www.techauthority.com/en-US/Pages/Home.aspx
, enter the information in steps 1 and 2. For step 3 choose owners manual - viewable flip book. When it loads, expand the Understanding the features of your vhicle tab. Then expand the Dual top - if equipped tab, this has instructions for attaching the soft top back to its hard points. Page 120 of the manual. Page 118 gives an inventory of what should be in the boxes.
When you're done with that, expand the soft top 4 door tab. This one has instructions for putting the top up. Page 155 of the manual.