But Javik isn't deep. He's just cynical, angry, depressed, and uber-bitter. He's not "deep"; he's just opinionated.
Like the quote you, er, quoted... I played as a character of honor, and he disapproved of my actions. He didn't believe in concepts like mercy, forgiveness, or equality... yet, over the course of the game, he came to accept there was value in my actions, even if he didn't agree with them.
His abrasiveness, his curtness, was a welcome subversion from the grandeur Liara had created in her head of this legendary, awe-inspiring civilization.
I loved that. I loved how barbaric he was. How condescending he was. How, despite feeling superior to everyone else, the rest of the galaxy had already surpassed his civilization in their prime and enacted progress and change his people couldn't. He was a dinosaur that struggled to comprehend he wasn't top of the food chain any longer.
His statements weren't "deep" to me. They were just defensive. Even his statement about "honor" was hypocritical, because he was a guy who believed so strongly in Prothean honor that he'd defend it to the last man (he was the last man). He felt an obligation to fight the Reapers, for their sake. So when he criticizes Shepard's "honor", he does so without being able to take that same criticism, and he has to outgrow his prejudices to make any progress towards his own goals.
I liked that.