First, we've already established for a long time that mindset matters. Each of these scenarios is a different crime with different sentencing guidelines
1) Driving a car drunk with your spouse in it and getting into a crash where they die
2) Walking in on your spouse cheating on you and killing them in the heat of the moment
3) Meticulously planning how to kill your spouse over the course of several months
In each case we have the same result (due to your actions, your spouse is dead) but we already recognize that your mindset (drunk, angry in the heat of the moment, systematically planning someone else's death) matters.
Second, hate crimes are added on to other charges because hate crimes are actually a seperate crime. If you were driving drunk with a black friend in the car and crashed it's different than if you went and lynched someone. In the second case, you not only wanted to hurt the person directly involved but you wanted to send a message of intimidation to people like them.
In this particular case, I think the jury did the right thing by rejecting the hate crime charges. It seems as it Ravi was dumb, insensitve and certainly invasive of his roomates privacy but it doesn't seem like this was a crime intended to intimidate the community.