Sweet, I guess first we should get the plot nailed solid, then figure out character specifics.
I really want to expand on the humanity of the characters, particularly those whose lives have been permanently affected by in-game events. But we'll come to those specifics when the time comes.
THE PLOT - SPOILERS MAYBE
For the sake of understanding, instead of using the counterpart names, I'm just gonna use the CT names.
Basically what I've got is that Dalton has access to the Exoverse, similar to the DBT, but where parts of the timeline are "preserved" in chunks of space-time. It is also where the "Golems" are from.
He starts ripping the timeline apart in effort to create his own (allegedly perfect) kingdom, and goes to Truce 600AD. He pulls the castle and the royals with it. Frog meanwhile is being distracted by Ozzie, Flea, and Slash, who claim to have the spell to return him to human form.
We see some cutscenes explaining the transformation and see him try the one selfish act of trying to fix himself instead of guarding the castle, only to lose his queen, who we find out in later flashbacks, used to be a peasant and a love interest before she was "chosen".
So he visits what was once Castle Guardia and his Hero's medal reopens the tear in the temporal quilt, projecting him to a waystation like the End of Time, but basically it's a C shaped room with a bunch of doors leading from it (like the epoch time meter but a big room instead of a dial) to different places/times from different timestreams.
You defeat whatever beast Dalton left to hold it there so it can be restored to it's proper place. Before it can be restored, however, the gurus have to be saved, Dalton has to be defeated, and you have to get the Chrono Clutch, which gives you the ability to restore the temporal quilt.
From these patches in the Exoverse, you can have backstory and plot advancement, since time doesn't matter, we can explain origins and backstory for the Nu, the Mystics, what adult Janus would be like if he weren't Magus, and many more things.
Any thoughts? Additions? Subtractions? or we can throw it out and start fresh. I'm very open to suggestion on this.