It's funny, sometimes, what elements of a story have the greatest impact on us. For me, the single most poignant action in the entire hour of the Bones season premiere, was Booth kissing Brennan on the top of the head.
Nothing says "I will protect you" quite like a kiss right on the top of the head. I don't know where the feeling of security comes from... maybe it's because the body thinks, "Way up there? That must be someone big," and so we're willing to let ourselves be taken care of. Maybe something special is communicated through the crown chakra. Maybe it's something about all those blood vessels the scalp has. Whatever the reason, I find it immensely reassuring to be kissed there, and I know I'm not the only one.
Kissing someone on the top of the head can be a simple but powerful way of expressing that you care for the person. Make sure you know how someone will react before you go kissing them, of course. Taken the wrong way, it might be viewed as either condescending or simply icky.