Now that I have watched Ghost in the Shell, I might have some understanding to the message, or at least what I understood from the movie. In my perspective, the theme of the movie was gender identity. It shows how the division of gender is greatly thinned when it comes to the “cyborg” in the movie.
The cyborg, Motoko Kusanagi, has the body and features of a female but due to her body being completely cybernetic, she is capable of martial feats and great agility that surpasses what her two male partners are capable of. This shows a gender reversal, meaning a “female” having a superior degree of power than the males. The “qualities” of the usually female, such as being neater, being more emotional or domestic, does not seem to relate to Kusanagi. It is not really known if the stereotypical characteristics of a female do not apply to her because she is a cyborg with only a virtual construct of memories, being just a program or that is just not her personality.
Perhaps it is how others treat Kusanagi that makes her human. For example, when she takes off her diving suit on the boat, her partner looks away, avoiding eye contact with her body, even though it is merely a “shell”. Does gender really makes a difference to what makes one human?