Seems like they're preparing a new part of Time Temple.

I was reading the quest log data and I'm not sure if this quest comes after defeating Cygnus, but basically Shinsoo has a quest for you and says "This is not the future" and to meet up with him in present time. Then, "You learned that the Gate to the Future actually leads to a dream world created by the Black Mage.
Return to the Black Mage's dream world and search for some clue as to the Black Mage's identity."
Shinsoo then says to defeat Cygnus again. You then find a Dream Fragment and talk to Athena (present time) about it, who has no clue about it and is acting strange. So you go to Neinheart in present time.
"You've learned that the Black Mage has a follower who can create and manipulate dreams. This Dream Fragment might be related, but...why was it in the future?"

And that's pretty much it ( I think)

may i ask where you got this from? i am VERY interested.

also, i did the dream fragment quest, what you say is completely correct, you get a quest for dying at the empress, but i can't find shinsoo at all to talk to him.