Hi Bob, been busy at work and not checking the FGF forums lately,
These guys go though lining up and installing a convertible top on a '69. The '67's & 68's are the same. They start on the top about 6 mins into this video. You can grab the bottom slider on the video and move it as you wish.
I don't think lining up a power top is any different to a manual top.
It takes a LOT of time and patience. But essentially you can fit the windows to fit the 'vert frame once you have the frame all sitting good and level over the front windows and the front header bow. The windows have almost infinite adjustment, the top not so much. Did you put on all the weatherstrip for the adjustment? Most will need to be removed to install the top so no glue yet. Hope this helps.