Back on topic...
The first game that made me cry like a pansy was Final Fantasy 6 (aka FF3 in the states). There was just so much plot... So many tear-jerking moments...
Kingdom hearts was good, yes. Though there were some good moments in that game, most of them came at the end of the game/world.
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The thing that made me wax emotional in Darwinia was an optional level, a bit further on in the game, called "Escort". In this level, you have to sneak your Darwinians around a number of egg-flowers, centipedes, and spiders, because most of the egg-flowers are difficult at best to get to (one is impossible), and those flowers keep the level nice and full of evil red critters.
I sent my first wave of Darwinians. They snuck around a larger mountain on a relatively straightforward path to the radar dish that led to safety. I had parked them on the mountain side for the time being. I panned my camera around the mountain when, to my horror, I found 9 spiders just sitting there in the valley. Okay, as long as they don't see me, this should be a snap. It was then that I noticed that the closest spider had, in fact, sensed the presence of my tour-group of over 100 darwinians...
What happened next is too horrible to recount, but I shall try my best.
The spider lunged... Leaping tall mountains with a single bound, the spider leapt into the midst of my darwinians. The Darwinian Tour Guide Officer tried to usher them to safety, but they could not hear him amongst their hundreds of panicked screams and cries for help. They ran off in all the wrong directions, alerting more and more of the Viral Plague to their presence. They ran into the clearing, and the centipedes got them. They ran up the mountain and the spiders pounced on them. They panicked. They screamed. They ran. Oh, the Darwinity!
Out of my small group of at least over 100 Darwinians.........
.........only seven survived........