Trolley Problem/Consistency in Ethics

[SteveII]

So long as we have evangelicals pushing an ethics which resembles low-level moral iterations (ie obedience, conformity), it benefits a public discussion to talk about how best to be a fully developed autonomous moral agent.

That is an oversimplification which misses the mark by a long shot. 

First, a definition:

Intrinsic (from Mirriam Webster)
adjective
belonging to the essential nature or constitution of a thing 
Synonyms: built-in, constitutional, constitutive, essential, hardwired, immanent, inborn, inbred, indigenous, ingrain, ingrained (also engrained), innate, integral, inherent, native, natural

Foundational to Christian ethics is the sanctity of all human life. This is rooted in the belief that humans have intrinsic purpose and value because we are made in the image of God (Imago Dei). There is no intrinsic value of humans under a naturalist worldview. The distinction can be seen in your two scenarios and the ensuing discussions on them.

In the trolley scenario, acting or not acting are both choices with no clear moral superiority (even based on a Christian ethical model). In fact, I think the deciding factor as to whether someone does pull the lever is bravery to face the personal consequences. The "what-if" discussions on value to society of the lone man have nothing to do with it because the ethical foundation of Imago Dei and the entailing intrinsic value is way more important than utility. 

In the transplant scenario, taking an otherwise innocent life is morally objectionable based on the belief that all life has intrinsic value and we don't have a right to set that aside for some other purpose (even saving more lives). And again, any "what-if" discussions on the utility of those involved is irrelevant. 

I think that even most atheist in western society believe that individuals have intrinsic value (just for being human). This is not a conclusion from their worldview--but the influence Christianity has had on the culture for a millennium. That is one reason why people say the US was founded on Christian principles--because a lot of our views on freedom have to do with this issue.