I agree with ditching the Prime Directive or at least rewriting it so that it isn't as inhumane and callous as it is in the TNG era. Allowing whole civilizations to die isn't something that should be advocated by the protagonists because some rule says they shouldn't get involved in stuff happening to pre-warp civilizations.
The question then is, who made them God? Should they deflect every incoming asteroid or comet that would cause an extension level event for every pre-warp civilization they know?
Frankly, that's non-sense.
You are unconfortable with some actions seen in trek because they display a level of power you superstitiously think should belong only to God.
Well, whether you're unconfortable or not with it, beings in the trekverse (and even in the real world, in certain areas) have that level of power.
Who made them "God"?
Themselves, be gaining such power.
And 'God' is not a fitting word for what they are.
Also - you thing just standing on the sidelines gets one out of the moral hook - when he had the aility to intervene?

If one stopping an asteroid is playing 'god', then one not stopping it despire having the ability to stop it is also playing 'god'.
Inaction is just as morally (and legally) binding as action - read criminal law and cases (from ANY law system known to man) if you don't beleive me.