I'm still not sure what the issue is with the FLIR. I took two screenshots, one with my build and my scene, and one with Javelin's test16 build, and my scene. Both FLIR look identical.
My build includes all of Javelins code changes for FLIR and other things.
So until I know what's wrong with your FLIR, I don't know what to start trying to fix. I'm also a little reluctant to investigate based on just your setup, seeing as I can't recreate it, so it would be good if someone else could test it.