Yeah, Harle was just made to infiltrate. Find a way to manipulate things to end in Fate's defeat, and acquire the Frozen Flame. I don't see why people think she had lack of faith by siding with the Dragons. Humans are not everything. She chose to side with her creators, and there is nothing wrong with that. She gave it careful consideration, it was not as if she decided this immediately.
My question is, does unifying into one nullify the existence of the singular weaker dragons? Did she have to die in order to complete the Dragon God? She ran into the frozen flame as suicide, and I think you see her soul head to the sky, which I assume was to unify with the dragon.
Wow, you're off in so many places.
Harle was created on the night of the magnetic storm, the night when Schala tried to escape the DBT, but to no avail. With the weakening of Chronopolis' defences and FATE's control over the flame for a few minutes, the Dragons were able to combine all their power together to release their daughter/sister into the world. That was Harle. Supposedly on that night, the Dark Moon was created with her, as she is of the Dark Moon.
Harle didn't choose the side of her "creators", she did what she had to do for her brothers and sisters. That's why it's so tragic. Harle is a joker, maybe she thinks her life is a joke. Who knows, but she knew that she could never be with a human, as we see on the boat scene with Serge.
As for the unification of the Dragons, the 6 Dragons (+ Harle) all used to exist as one being, which was the avatar of the planet's power in the Reptite Dimension. However, when CT's planet sent Dinopolis in to fight Chronopolis, FATE with the power of the flame split the Dragon into their elements, which became known as the 6 dragons. Harle is symbolically the Chrono Cross, or the 7th lost element, even if her innate is black (obviously it wouldn't be the 7th element, that'd ruin the game).
Basically, my point here pretty much is that the Dragon God could still be split, but it was defeated, destroyed, what ever, so it doesn't matter.
However, we all hope that Harle, at least, was able to survive in the new time line.
As for your point on Harle and suicide - Harle didn't committ suicide -.-
Harle grabbed the flame and escaped before Kid could screw something up. With the flame gone from FATE's grasp and taken to Terra Tower, the Dragons were able to free themselves from their bonds on their islands, and reunite to form the Dragon God, or in this case named the Time Devourer (arbitrarily).
I believe that Harle may have been the key to their revival/merger because possibly Harle not only contains their power, but she is also the only dragon with a physical body in the world, so she pretty much would be used as a catalyst to give the Dragon God a physical body in the dimension, except she gets merged in with them X_X