Masato Kato was the main writer whereas Yuji Horii only penned the draft. Kato was the one responsible for the Zeal chapter of the game.The main writer in Chrono Cross was one of the writers of Trigger, wasn't it?
He was given a few months to make Radical Dreamers and then begged for years to make a sequel. He's one of the only ones who championed hard for the series to continue, he is definitely the father of the Chrono series.
He was also one of the only ones who wanted for the story to have real consequences instead of just having a purely happy ending:
There was also a time during a meeting when the idea of the main character dying came up, and the whole room suddenly burst into laughter. I seemed to be the only one who thought "That was a serious suggestion, what's so funny?" and sat looking blank. (laughs) Although at that point Mr Horī did say "Hey, that might be pretty interesting." Incidentally, the idea that I had at that time was for Crono to really die, and the others would have to go back in time and enlist a version of Crono from the night before the Fair. Then after the final battle they would have to return him to that point in time and bid him farewell. But that idea was rejected (laughs). They said it had to be a happy ending, so we eventually settled on the story with the clone as it is today.