More than likely there's a difference in your factory glass itself that's making the color appear different. Toyota/Lexus is notorious for using different glass in their vehicles over the years, from green to bronze to clear to reflective and in some cases a combination on the same vehicle. The late 90's and early 00's RX300 and Land Cruiser both come to mind as common examples still frequently seen on the road. While no one can rule out 100% the film being switched it is highly unlikely that they would've done it for that single window. I'll attach a picture of an old truck I did recently where the wing window on the driver's door was clear glass while the rest of the truck had solar green glass, the same film was used but you can see the color variation between the main roll up window and the wing window in the picture. In the pic it's fairly subtle but in person it's much more noticeable.