I play with a lot mods, and the ones compatible with NetherX are: Aether II, Invasion Mod, Rediscovered mod, special mobs, utility mobs, optifine and balkons weapon mod. But thats only the mods I use. There are surely others.
Thanks shinhoto for the list of mods that work! Keep up the good work! Thank you nelvak for fixing the ghast shrine page, I have been meaning to but I never got to it. I hope the next update comes out soon, I am really looking forward to it!