When Beans has another of her zone outs during the posse's Darkest Hour, Rango tries to encourage her and he can't resist giving a peck on the check of the lizard he's growing to love. As he turns to leave, Beans returns to consciousness, apparently aware of what Rango did and smiling privately.
Another interpretation of that scene is that she faked that particular zone-out specifically to give Rango that opportunity
Note that the "zone-out / zone-in" sound effect doesn't play when she regains consciousness in that scene. That's the only time it happens, giving more credibility to this theory.
Rango exposed, going back to find the fish and hug it.
When Priscilla, the near emotionless Eye-eye girl, embraces Rango at the end and says, "Thank you. You brought the water back."
She was also nice enough to shut him up when he started in on a Moment Killer: "Don't spoil it."
Beans kissing Rango when they're in the drowning tank after excitedly saying "You came back!"
An atypical example, but Rattlesnake Jake showing his sense of honor and acknowledging Rango as a real hero at the end.