Brawn is not just pure strength, it is also resilience and athleticism both of which he has in spades. I would go with 4 for Anakin who maybe bumps it to 5 by the end of the Clone Wars (he's certainly used it enough by then).
I would also put a point or two into Cunning. Anakin in the Clone Wars showed a knack for out-of-the-box thinking and approaching a problem sideways. Even Vader keeps this up with his hunting down of Luke and other (like the characters in Rebels).