Tubthumper

I've had this same problem. The fix is to paint beyond the top of the fuselage depicted in the paintkit. All you need is a few pixels width added in.

You're missing the alpha channel in your repaint. Using DXTBmp you can easily import it from another file that has it. Load a DDS file from a plane that has the lighting working in it then export the alpha to the folder where your paint is saved to make it easy to find. It will save it as a BMP. Then open you paint in DXTBmp and import the alpha to your texture and save it making sure that the alpha and paint are oriented the same first. This will fix the Vertical stabilizer lighting problem; I'm not sure how to fix the window issue but you'll need to start by blanking out the same windows in the alpha that you blanked out in the paint. It's possible that adding then editing the windows in the alpha fixes all the issues.

I suppose you could convert the DDS files to BMP's and use the color replacement tool of whatever you're painting with to switch the colors then make the new DDS files and put it back into the sim but I wouldn't expect clean lines. I think you would have fair results at best. If you decide to try it, copy the plane you want to replace the colors on then make your changes and install it as a new plane. That way if it doesn't work out you haven't lost anything. Ideally the best way to do it is to make a new paint. There are tons of repainting instructions out there. A few years ago when I was a puppy painter the best one I found that worked for me was some YouTube videos from Mr Turbine777. He has a 22 video series that covers most everything you need to know and how to do it. Here's a link to the first one in the series: https://youtu.be/ztyJlKDbdwA I've also gotten a lot of help and ideas by searching the topics in this forum. Unfortunately, I don't have the Flysimware Lear 35A so I'm unable to assist you repainting it.