1. His obsession with Dr. Ford's "reverie" updates
In the latest host upgrade, Dr. Ford snuck in a new function: "reveries," a set of movements the hosts make that are tied to specific memories (or, for robots, traces of past programming). When Bernard explains this to his assistant, she's reasonably confused; Westworld employees are supposed to purge host memories at the end of every narrative loop -- i.e., every day. Bernard suggests that past programming is still in there somewhere "waiting to be overwritten," and that Ford found a way to access them "like a subconscious." He goes on, in a voice filled with awe: "It's the tiny things that make them seem real."
Unfortunately, the "reveries" are the source of Westworld's current malfunctions, a point Bernard reluctantly brings up with Dr. Ford, who then treats him to one of his patented speeches that puts a finger on the thesis of the show. Ford explains that humans have peaked, because we've been able to fix all natural "mistakes" and "slip evolution's leash." The next natural step, he says, is for us to be able to eventually "resurrect the dead." But, Ford says, Bernard must indulge him "the occasional mistake." Upon hearing this, Bernard smiles warmly and walks off.
Ford is proclaiming himself God in this scenario, and because humans are "done" and "as good as we're going to get," the more interesting project at this current time is to push androids closer and closer to that human reality, mistakes and all. Judging by Bernard's demeanor as this is revealed, it seems that he's on board with this.
But as we find out with the Peter Abernathy host, when those old memories act as a subconscious, the hosts remember all the depraved stuff the rich humans do to them in barns. Acting out is inevitable. And by acting out, I really mean destroying or enslaving our entire civilization and making us chug a lot of milk and listen to the piano version of "Black Hole Sun" ad infinitum.