I have this problem on my 1980 Concord, in a big way. It's the worst door fitment I've ever seen on any car. It's not just the way the window frames align in between the roof pillars, it's also the panel gaps.
The driver side is marginal, the passenger side is horrible. It's a four door, and the gap between the doors on the passenger side is literally half an inch. There's no room for adjustment, since that would move the window frames way out of alignment.
The car has never been in a collision as far as I can tell. It just seems that these particular doors weren't manufactured to very good tolerances. I'm going to try replacing both passenger doors to see if that doesn't solve it. I plan to eventually repaint the whole car anyway.