That "means well" thing is pure BS!! In the latest chapter she even subtly threatens someone whose men hurt that old professor who was friends with her creator (she even jokingly suggested dropping a nuke on Gavrill, her more dangerous "sister"/fellow creation, in the same chapter)!
She's not allowed to "kill" people because that's how her creator conditioned/made her, but she can inflict fates worse than death, and she has done so willingly in the past, such as turning that one female spy and her male suborndinates into dog monsters and letting the males "mate" with her out in the wild!
Some of what he does is because she genuinely can't understand what normal people want (it doesn't help that a lot of the people in her world are idiots or don't realize what they are getting into with her) or because her conditioning/programming sometimes forces her to try and save lives no matter what, but she is smarter than she let's on and can be quite malicious if she get's pissed off (like siccing mutated monster girls on that one guy who made a fake snuff flick featuring her face or saving those anti-medical militants only so Andrea could harvest their organs later on)!
OmniGman said: ... or saving those anti-medical militants only so Andrea could harvest their organs later on
She proposed them a deal back then. She'd prolong their lives, however if they die before rescue arrives, she'd harvest their organs. IIRC, they've been there for a week. A length a patient in critical condition can't survive, and the only people looking for them were Fran's men.