Just a couple plot questions... [spoilers]

[Renegade_]

I'm generally in agreement with Razal.
Given as I said, that [c] is contradictory to the plot, then either:

Spoiler below!

a) Amabel is stupid for watching as a deranged man hoists a heavy weight above her head and proceeds to drop it. This obviously took longer than a few seconds, giving her ample time to move out of the way, what did she think was going to happen?

b) Phillip is stupid for believing Clarence's hallucination. Because of (a), he should know full-well (since Phillip = you = me, and I know full-well) that Amabel must have been infected and that Clarence was just deceiving him afterwards. Thus all he did was kill another infected, and so should not feel bad about "killing Amabel".

Seeing as Amabel is a relatively ingenious doctor (really, all you'd need is common sense to avoid (a)), and since I/we play Phillip, and I/we are not stupid (hopefully), then both (a) and (b) are plot holes/story-killers/contradictions, etc.

Also, for those unsure of Clarence's intentions:

Spoiler below!

I think it's pretty evident in the story that Clarence is under-going classical Stockholm syndrome, where at first he is under order of the Turngaait directive to imprison or kill Phillip for the greater good, he later begins to enjoy his symbiotic individualistic existence with Phillip. After time, he bonds with Phillip and begins to like individualistic life (as he questions himself: "I'm no Monkey... am I?"). So, towards the middle/end Clarence actually wants Phillip around so he/they can share the body (he knows he can never have it fully, since it would require intervention from the Turngaait to imprison Phillip and re-assume Clarence; but that would mean the end of individual life for Clarence, which he now enjoys). It's not until the very end that we can consider Clarence's delusional attacks as his full destructive capability; since he knows Phillip is going to destroy him, Clarence has every interest in killing them both. From this we can conclude that:
a) except for the very beginning and end, Clarence begins to enjoy the individualistic experience with Phillip
b) Clarence is not capable of anything more harmful than delusions

In fact, we see the irony play out at the end, when Clarence cheerfully claims he's found a new body, but just when he thinks things are finally going good (he enjoys being an individual), he is met with a twist of fate, and taken down by the brethren he had once-loved (but now abandoned) for being an individual.

Hopefully this analysis should clear up some confusion.