I have a soft spot for FFIX, it's the wife and I's game. Kind of reintroduced me to the Final Fantasy series after a disastrous first meeting with FFVII.
Chrono Trigger is absolutely awesome though, I do agree.
Perhaps one day Squenix will stop remaking Final Fantasy XIII long enough to revisit some of their classics in a proper fashion. Like that FFVII demo intro they did for the PS3 that had so many people hyped up for a remade FFVII.
(for those who know not of what I speak -
)
Time will tell, after Uematsu left I feel that something of the old spark has gone out of the series, the music for one.