My example is that I believe Kirk would get an earful over his resolution to the Apollo situation.
Once they figured out the temple was the source of his power, Spock could have destroyed it at any time. There was no rush to force Apollo's hand and resolve the encounter that quickly, I think that upper echelons would feel that contact with an actual Greek god was worth gathering a few laurel wreathes as part of a longer term operation.
The writers of course are constrained by the episodic nature of the show, that each week had its own story and resolution, so they really had no alternative but to write it just as it was.
Once they figured out the temple was the source of his power, Spock could have destroyed it at any time. There was no rush to force Apollo's hand and resolve the encounter that quickly, I think that upper echelons would feel that contact with an actual Greek god was worth gathering a few laurel wreathes as part of a longer term operation.
The writers of course are constrained by the episodic nature of the show, that each week had its own story and resolution, so they really had no alternative but to write it just as it was.