He was messing around with a small piece of the Weave - that's not quite god level magic. Though I may be misunderstanding just how powerful the control of a small piece of the Weave would make you.
And you're right, the alignment system doesn't do more than give a general idea of someone's behavior. That's more or less its entire value as far as I'm concerned - giving you a general idea of how someone behaves, which may not apply in certain circumstances and which can shift gradually over time.