Sorry for breaking in on this post, but I use this scenario with several major mods. That includes the Py mods, Angels mods (with py competability), bob's mods and AAI. Together with that I also got quite the set of minor mods to go with it.
The only mods I found that are usually incomparable are 'planner' type of mods. and mods that severely alter water placement (those mods can overwrite the sand area spawned by Brave new world, causing it to crash because no robot port exists)