Clayface has just gotten done watching The Dark Knight Rises, and figures he'll take down Gotham's stock exchange too! Only this time, he kills all his partners, just like in the previous issue's jewel heist. Of course, Batman shows up, saves an innocent woman, and tries to seal Clayface in the same container he used to trap him in Batman #19 or #20, I forget which one. But, unfortunately for Bruce, the action is so chaotic, he isn't able to get a full seal on the bottom, and Clayface slips out any gap he can find, ultimately escaping capture.
Still on edge after Clayface morphed into his deceased girlfriend, Natalya, Bruce decides to look into the connection further, and tries to speak with Mad Hatter, the only person who knew Natalya and Batman were familiar with each other, at Arkham. Unfortunately, Hatter isn't talking, to anyone but himself, that is, so Bruce looks into any visitors Hatter may have had, and finds one interesting entry.
Bruce's next stop is to wake Penguin up in the middle of the night, after finding out that one of his men visited Hatter, and coincidentally enough, the men Clayface has been using for his job are some of Penguin's competitors, and even more interestingly, it turns out Penguin made a couple of "smart" moves in the stock market just prior to Clayface's attack. Of course, Penguin admits to nothing, but it's suspicious.
Later, Bruce lights the Bat-Signal, essentially to call Gordon who inspects why it's on... and to check Gordon is Gordon, Bruce pretty much just smacks him to see if it's Clayface or not. Turns out Bruce has a plan, and needs the GCPD to help lure Clayface out into the open, and also spook him too, so he can't concentrate, and weaponize himself.
Sometime later, Clayface is setting up for his next heist, but instead of the men he was expecting to help (and probably kill) a bunch of people dressed up like Batman show up, of course, this freaks Clayface out, ultimately spooking him, bringing him out in the open, and then he gets locked up...