One of the biggest issues with Batman v Superman was the poor editing, for which both the studio and the director have been blamed. This led the fans to believe that a director's cut (now called the Ultimate Cut) would make the whole movie less messy. It appears that the fans were right. CBM got a chance to watch the Ultimate Cut of Batman v Superman, and there were quite a few essential scenes that had ended up on the cutting room floor.
If you intend to purchase the film and you want to avoid spoilers, now is the best time to look away.
For starters, the Ultimate Cut of Batman v Superman explains how it was possible for Superman to be blamed for the killing of the terrorists. Thus, it is revealed that KGBeast actually burned the bodies, to make it look as if the alien did it. Furthermore, the woman who testified against Superman at this point was actually an actress hired by Lex Luthor.
The actress then has a change of heart, and tells Senator Finch all about it, which prompts Lex Luthor to hire someone to take her out of the equation. So, basically, Supes wasn’t called in front of the Senate just because a weird bullet was found on the scene. Even more, it is now crystal clear that Lex orchestrated everything from the very beginning.
This isn't all about Lex Luthor, though. The Ultimate Cut of Batman v Superman makes it clear that he planned the Senate bombing without the bomber’s knowledge. Thus, Wallace Keefe didn't intend to commit suicide that day; the bomb was hidden in his wheelchair without his knowledge. This is made even clearer when Lois Lane visits his apartment and finds signs that he intended to live beyond that day (of course, Lex Luthor intervenes and makes it look as if Keefe planned it all along).
The Ultimate Cut also shows that Batman v Superman's Man of Steel is actually heroic. Thus, it is explained that the bomb was encased in lead, preventing Superman from seeing it. Furthermore, instead of leaving like he did in the theatrical version (like a depressed teenager), Clark Kent actually helps with the recovery of the bodies.
Clark actually gets to flex his journalistic muscles in the Ultimate Cut of Batman v Superman. There were scenes on the cutting room floor in which he closely investigates the Batman. In a way, as many have indicated on the web, this could have also been called the Superman Cut instead of the Ultimate Cut.
It is also revealed that Clark’s funeral was entirely paid for by Bruce Wayne, with Pete Ross and Lana Lang in attendance. This shows that Clark made some friends in Batman v Superman, and that his character actually grew.
The Ultimate Cut also makes it clear that Jimmy Olsen is dead, and reveals that Jena Malone's character is just a simple STAR Labs employee who tells Lois Lane what she needs to know about the bullet found in the desert. So she is, basically, just an extra and nothing like it was rumored before.
Lastly, it is also revealed that Lex Luthor won't just stay in prison. Instead, Batman has arranged for his transfer to the Arkham Asylum, which further hints that Jesse Eisenberg will at least cameo in August's Suicide Squad.
