Unfortunately life is never so easy, the results are definitely better but when I print the photo above there are still a few really obvious squares of non-uniformity and it's driving me completely insane. I've spent all day trying to figure it out, I suspect that the LEDs change intensity as they heat up over the course of an exposure in a non-uniform way which could change the correction but I haven't been able prove if that's an issue or not.
There seems to be something fundamentally different about taking a photo of the image projected onto ground glass vs. printing it, because the variation in the print is large enough that I would think it must be more visible in the ground glass photos. The cyanotype process is obviously very non-linear, meaning that very small differences in exposure create large differences in tone on the print in the highlights, so the light source needs to be extremely even, but even so the ground glass photos would seem to indicate it should print fine. I'm slightly suspicious that the intense UV is confusing my camera somehow...
Ultimately this is very frustrating as the really interesting part of this system is supposed to be the LCD screen which so far works perfectly, the light source was never supposed to be the problem! If I bang my head against this wall for too much longer I'm going to have to think about changing the light setup completely but I'm not sure what would work better at this stage.