The best replacement for chrono trigger is chrono cross.

The best alternatives to chrono trigger are rated as following:
★★★★★  chrono cross
★★★  final fantasy 6
★★★  final fantasy
★★★  secret of mana
★★★  final fantasy 7
★★  final fantasy vi
★  earthbound
★  dragon quest
★  xenogears
★  dragon quest v
★  ff6
★  final fantasy iv
★  world ends with you
★  ff4
  ff7
  ffiv
  super mario rpg
  ffvii
  super metroid
  final fantasy tactics
  mario rpg
  final fantasy vii

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Speaking about chrono trigger, one probably shouldn't forget about magus.

Other search terms related to chrono trigger and their ratings are:
★★★★★ magus
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chrono trigger
chrono cross
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