We would have to work with a custom CraftBukkit then. I presume none exists that support this mod, so we would have to do it all ourselves. That said, the mod probably doesn't even support multiplayer (eg block updates, player interactions with these new blocks). The server would these new events, but the mod wouldn't recognize it. I'm just speculating, perhaps it would, I don't know how good of a job the mod dev did.
Back to my original point, we would have to modify CraftBukkit to support these new blocks, mobs, events, interactions, and whatever else the mod(s) do. It would be a really challenging and tedious process, one that I myself am not up for, as cool as it would see integrated (Innectis first server to support Aether mod :eek::eek::eek::eek:)