Chrono Trigger is packed with developer secrets and intricate world-building that rewards thorough exploration. A cornerstone of its lore is the cyclic nature of Lavos, a parasitic organism that arrived in 65,000,000 B.C. to harvest the planet's DNA, eventually influencing the fall of the magical Kingdom of Zeal in 12,000 B.C. and the technological apocalypse of 1999 A.D. Understanding these historical connections is key to mastering the narrative.

Keep an eye out for these specific secrets:
- The Programmers' Ending: One of the most famous easter eggs in gaming. By defeating Lavos at the start of a New Game+, you can access the "Development Room" at the End of Time to speak with sprites representing the game's actual creators.
- Ozzie's Dialogue: If you bring Magus to the battle against Ozzie in his fort, unique dialogue triggers that adds depth to their former relationship.
- Cameos: Look for the 1500 G reward item "Nu" or references to other Square Enix titles like Final Fantasy, often hidden in the bustling crowds of the Millennial Fair.
- The Sun Stone: This multi-era quest reveals how human greed and ecological change evolve over millions of years, transforming a dead rock into a powerful relic.