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Tear Jerker: Lufia
The ending to Lufia and the Fortress of Doom is particularly poignant, though it ends on a hopeful note.
The ending of Lufia II is perhaps even more so, especially since if you played the first game, you know what's coming.
No, try and imagine what the ending of Lufia II is like if you've never even heard of the first game. That was this troper's experience...
This troper had an identical experience. First game to ever make her cry.
That's the evil part. Lufia 1 had you playing out the end of that story already. So if you've already played the first one, the second one is only making you go through it all over again.
Lufia & The Fortress of Doom has Arugo and Hero's conversation after The Reveal, wherein Arugo asks how Hero plans to deal with Lufia's very existence enabling the Sinstrals to endlessly reincarnate. Arugo starts to suspect Hero is actually willing to kill her to break the cycle — and to make matters worse, Lufia overhears this part.
The ending to Lufia: Curse of the Sinistrals is a tearjerker for a different reason. Being a re-imagining of Lufia II: Rise of the Sinistrals, the game finally has a happy ending if you beat the game on New Game+, which means that after 15 years since the game's original release, Maxim and Selan finally get to go home and raise their son instead of dying on Doom Island.
Lufia II after Maxim and Selan die on the Fortress of Doom, the ending implies that everyone thinks that they're going to make it out alive and that they'll see them tomorrow at the big party Guy is going to be hosting. Also, seeing their child Jeros, cry out for his mama during the same sequence is heartwrenching enough to elict a few tears for the now orphaned child. See Tear Jerker: Lufia and the Fortress of Doom.