Heck just take both to an upholstery shop and have em swap the slider to the new window. Problem solved, matching windows.
Or do it yourself. It's no biggie. I just had to redo the back window on ours as the zipper had pulled apart at both corners. Popped the stops off both sides, pair of side cutters worked well for grabing the pressed in stops and bending them to remove and reinstall them.
Pulled both zipper slides off, pull the window loose, reinstalled one slide to connect everything back together, installed the second slide, reinstalled the stops.
Took more time getting the corners zipped back together then all else. Maybe 1/2 hour at most. Your's shouldn't take more then a couple.
97 Sahara, 74 Renegade, 72 CJ5, 55 Willy's (the Beast) Boss 302, 6:34 gearing, Bose 901 speakers.
God I miss that Jeep. Forgot the kinda Jeep, 80 SX4.