Questions and Answers

The Alien franchise is one filled with ambiguity and mystery. Behind the facade of a series of seemingly generic monster movies hides a collective franchise filled with possibilities and mysteries, enigma's with no real answer or definitive truth. As such many audiences of these movies, especially the fans infer and imprint upon the franchise their own beliefs and suppositions.

Unfortunately, it becomes cloudy when one or more confuses open-ended questions with definitive answers and inferred possibilities with absolute truth.

One example would be the character of Michael Weyland or as he is credited in Alien 3; Bishop II - Is he human or a synthetic? Because this has not been answered definitively it remains an open-ended question, open to inference by the audience until at such time it is answered definitively.

While Aliens: Colonial Marines did answer the question, revealing the character to be a synthetic, it's short stay within the franchises canonicity means the answer given is not valid.

I have seen some claim that the questions posed within Prometheus where also answered within Prometheus, which others debate. So looking at the franchise as a whole, but chiefly at the prequels before the sequels, what questions do you feel have been answered and which do you believe remain open to inference?