In the newer Battlestar Galactica, the "Final Five," who are really the "Original Five" humaniform Cylons are humans who have figured out how to make artificial bodies and to live forever by creating a new body when the old one wears out.
They come upon the Cylons who are, at the time, trying to make an improved version of their own selves and help them with that, thus creating the humaniform Cylons like Boomer and Six and Brother Cavil.
Since the Cylons were originally at war with the humans, and since the humaniform Cylons were the ones in control over the Centurions and other mechanical Cylons, was there a reason the "Original Five" would not have taken the safety precaution to program a built-in respect for other humans?
And even if they didn't do that, wouldn't all the humaniform Cylons know who created them and be inclined to treat them, and humans, better than just trying to kill them all?