Prometheus (ALIEN prequel)

1. Why was the android homicidal right from the beginning? He was there to locate the "engineer" so the old guy could have a chat about extending his life. That's why he opened doors in the alien ship wthout hesitation. Why did he then infect the lead male? Why kill off crew mates if your goal is to set up an appointment for your dad with God?
2. After trying to dispose of Dr. Shaw, she escapes, has a C-section, and bumps into the old Weyland. Now instead of trying to kill her or grow aliens inside of her, everyone is all excited about a field trip to talk to the aliens and Dr. Shaw should really come along. What?
3. Our 180 year old employer that everyone thinks is dead was really hiding on our spaceship the whole time. No one seems to care that the richest man on earth just suddenly shows up.
4. The android wants to kill his creator, the old Weyland, and find out about freedom. To this end he kills lots of crewmates and obeys the old guy's orders without trying to trick him. Once the old dude is dead and the andriod's head is knocked off he decides Dr. Shaw may be a good buddy to hang out with for eternity. And Dr. Shaw decides to trust him?!?
5. Why did Charlize Theron come along again? Is the old dude really her biological father or just a father figure? She hates being there, would apparently be CEO at the family company if she stayed behind, and is overly cautious by nature (thus the med pod). Other than having terrible "daddy issues" is there a reason she came on the trip?
6. Lots of people die, but the captain isn't too interesting in getting the heck off the planet. With not much explanation he just decides to take these stranger's word and commit suicide to save the human race. Even if he's a really nice guy, what evidence did he have to do this?

We are our own god, but after meeting ourselves some people still like to hold on to their cross jewelry. Our god apparently gave his life (by dissolving in the ancient oceans of earth), but now would really just like to grow terrible alien creatures to destroy us (in an overly complicated fashion that relies on some form of evolution). Not quite sure what Ridley Scott would like to sell us at this point, and I'm not sure if he understands what his own issues with God are. I left with the impression that he decided "I want to make a huge statement on the nature of god and man, but after re-writes and studio previews/edits this is what was left".

1. I don't recall the android being homicidal at all. He infected the male lead based on Weyland's orders to do so.
2. I don't believe he was trying to dispose of Shaw; the plan was to throw her in cryosleep so they could take the organism back to Earth. However, what I don't understand is that they seem to 'forget' about the little squid when she walks into the room where Weyland was. Like you said, they were all about the field trip...even David didn't ask what became of the baby squid - it was like "you are quite resourceful" and that was it. Weird.
3. I agree - no one gave a second thought that this ancient dude was secretly onboard...it was like "la-dee-da...". Again, weird.
4. I don't believe that the android wanted to kill his creator...at least I didn't get that impression. I don't recall him killing off crewmates...they were killed either by the mutated Fifield, the Hammerpeed, Vickers, the awakened engineer, crashing the Prometheus into the Juggernaut ship or getting squashed by the Juggernaut when it crashed and rolled on the ground.
5. She apparently was Weyland's biological daughter. She obviously knew that daddy was there, so I guess she decided to go along to ensure that he survived the trip...however, I think she was glad that he got killed. I also think she hated David b/c Weyland treats him like a son.
6. The Captain understood what he had to do. He was all for leaving the planet, but when it was discovered that the Juggernaut ship had thousands of those ampule containers and was heading towards Earth to "wipe it out" he had to do what he must in order to prevent that from happening. He saw the containers on the ship via video feed, knew that they were bad news.

2 and 3 are perfect examples of things I hope are addressed in the extra footage on the video release. We don't see it mentioned by anyone. There's no "oh I almost forgot to mention, I just gave birth to an alien"... orrrr something of the sort...

if not, then both 2 and 3 are the biggest plot holes in motion picture history...

1. What did David think would happen if he infected the male lead? I'd assume that it would sicken or kill the dude. So maybe he wasn't homicidal, but at least he didn't respect the life of others.
5. I'll agree that Charlize was very envious of the andriod. And she didn't seem to mind if her dad got killed. Never really got the feeling that she either loved him or hated him enough to come along on such a long spaceflight. I'm still lost as to her motivations. (Although if you ask her a girl if she's a robot she'll evidently make sweet, sweet love to you. Got to remember that one).
6. But the captain didn't try to leave prior to the ending. I'd assume he'd be arguing with Charlize (or Weyland) that this was too much and they had to go. But he stuck around. And I'm not sure if he (or any of the surviving crew other than David) ever figured out there was something evil in the containers. Dr. Shaw spoke of biological weapons, but how did they know where they came from?

1. I think David just does what David is told (for the most part). Weyland didn't care what the outcome would be, just the results. So, David was just doing what Weyland told him to do. With him being a droid, I guess he has no remorse or care for the most part.
5. I think Vickers just falls under the old 'daddy issues' problem - always looking for approval, never getting it, so she obviously becomes bitter. Yeah, I gotta remember asking girls if they are robots as well - apparently than maneuver works .
6. Dunno what to tell you about the captain. I just thought that he figured out that place was heck and wanted to get off the planet.

Shaw taking another ship and leaving

multiple engineer ships then why not any more living engineers? There were 4 or 6 of those big dirt mounds when they came in for a landing. Each one is presumably a buried ship. And our heros got lucky enough to pick the only one that still had a cryo-frozen engineer?

Why Shaw took off to go to the engineer homeworld...I mean, if their goal was to wipe out Earth what does she think they will do once she gets there? Bake her cookies?

I wondered the same thing regarding other living engineers - unless they all came to that one ship and are part of the dead body pile up...but who knows...