These are what we call the 'YMMV items.' Things that some people find in this work. We call them 'your mileage might vary' because not everyone sees these things in the same way. This starts discussions in the trope lists, a thing we don't want. Please use the discussion page if you'd like to discuss any of these items.
Archive Panic: This arc is huge in every sense of the word. The bare bones of the arc itself, according to Wikipedia, comprise of material from Batman, Detective Comics, Shadow of the Bat, Legends of the Dark Knight, Robin, Catwoman, and Justice League Task Force. And that's not even getting into the supplementary material like the Vengeance of Bane special or the Sword of Azrael mini-series. And it wasn't helped by the fact that DC only packaged "Knightfall" and "Knights End" in collected editions, but not either side of "Knightquest", though with the new "Knightfall" collection, it's been rectified.
Badass Decay: By the time of his final appearance in the story, Bane has lost a great deal of blood and has degenerated into a raving lunatic.
After a few appearances where he was badass again, the decay set back in and continued for a while into the comics, as well as into Batman & Robin, where Bane was portrayed as dumb muscle. Thankfully, Secret Six and more recently The Dark Knight Rises brought him back to his old, awesome self.
Old Shame: Perhaps the reason why The Search being left out of trades isn't a matter of executives thinking people won't like it but because Denny O'Neil doesn't seem to be too proud of it.
Older Than They Think: This is the first time Dick Grayson takes up the mantle of Batman or rather during the Proginal storyline.
Squick: The Joker crashes his way into the hideout of fellow escapee Cornelius Stirk (who, believe it or not, is arguably more deranged than Joker is) and basically demands that Stirk team up with him to terrorize Commissioner Gordon. And all this while Stirk is stirring a pot full of boiling human hearts!