I just saw this, @Mr. Orange, and you touched upon some things that they tied up in the season finale which aired tonight. Let's just say, what I have been suspecting was true all along and most of the reasons why you see people in this show acting in a manner of way which might not make total sense is because they have been programmed to act that way either by Ford or Arnold directly or through proxy by someone(thing) else.
All the mumbo-jumbo has been pretty much tied up except the costumes. I guess they just keep the hosts in the same clothes and have a file saved on storage on what they should wear so it's easily printed out, the next time they die.