64 Dart Hardtop Window Adjustment

Bumping this; anyone with experience installing a new roof rail weatherstrip? The instructions from the shop manual are shown in the images. My problem: The rear quarter window seats well, between the inner and outer lip. On the front (door) window, I adjust so that it seals as shown in the photo when closing the door, but then it is out of line with the quarter window. Rolling the door window down and then back up results in the two windows being relatively in-line. Seems like I am doing something wrong, but I'm not sure what.
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