Most cross-mod compatibility relies on the other party; However, it would still be nifty for FU to recognise a couple (it does already) and go "oh hey you're playing with that, here's this research tree"

AE: Running Arcana? There's a few research things and stuff like that.
Running K'rakoths? You might be able to use those decorative objects for something...

etc.

I'm not suggesting anything major at the moment; but if one were to foray on it; it could start with simple scanning quests (K'rakoths already has a few in their mod; and the K'rakoths mod goes very well thematically with Delta Freya II and other such things); Their decorative items could be stuck into some of the missions or dungeons (I like those coral lamps and the golden ruin eye reliefs, Those are pretty cool.)

This would likely be more on the case of individual devs to implement on a case-by-case basis; Who knows, somebody in the science outpost might be looking for one of the Yukai's objects. These are all just examples.