As of yet I've been playing Chrono Trigger for eleven of the twenty-six hours since I got it. As for names...
Chrono = Mario, for obvious reasons.
Lucca = Daisy, as I had assumed that she'd be more tomboyish than Marle.
Marle = Peach, as she sets the game's events into motion by needing to be rescued constantly.
Robo = DK, simply because he's chunky and physically-oriented... In retrospect, ROB might've been better.
Frog = Toad, as his unwavering servitude to the queen seems fairly in-character, along with his uncanny namesake.
Ayla = Samus, because the wellspring of fitting Mario names had run dry by her point.
I might've considered all your suggestions had I been aware of them... My apologies.