This story has absolutely no idea what kind of tone it's going for. Any sort of edgy grittiness is instantly removed by pastel colored horses fucking each other and yammering about friendship. When Fallout 3 gets dark or heavy, it almost never has anything to do with the main story line, or really, anything important at all.
There's the tragedy of losing your Dad, shown is meant both as a means of making the player feel a real loss and as a motivator to complete your father's work. This is the single "darkest" element in the story.
The principle antagonists of this fic are a slaver who is more diabolical and conniving than any Fallout slaver has ever been (even Ashur, who was basically a professional slaver) and the MLP-ified version of The Master (who is probably the edgiest villain in Fallout, which is probably why the author imported him from the first game instead of keeping The Enclave as the sole opposing force in completing the main objective). Oh, and The Enclave is still bad. There are so many antagonists that exist solely to ruin the life of our hero, not actually hinder their progress.
Sloppy indeed.
Apparently, the version that we are reading is a heavily processed, workshopped version. Several years ago, I was shown the original story and it was (somehow) worse.