There is a reason we have morals. They aren't arbitrary codes of conduct we follow for ceremonial purposes, nor are they campy principles we adopt for fun. We have morals because they make sense.
They may make sense, but that does not make them useful or meaningful. Indeed, many aspects of traditionally accepted morality have no place in today's society because while they certainly make sense in terms of primitive behaviour (otherwise they wouldn't have developed in the first place) they offend modern sensibilities, at least those of sensible non-hypocrites. And that's an important point, I think: many aspects of morality (socially-accepted shared codes of thought) are actually hypocritical and illogical and frankly the "moral" people in society I often find distasteful, if I may be so blunt. They have no true empathy or personal prinicples, they don't self-examine or question, they merely act and indeed evaluate both their own conduct and that of others on the basis of a rigid code that is indeed more often ceremonial than meaningful. Personal ethics should trump morality every time in my opinion. In my eyes, the great thing about what Sisko did in this episode is simply that he broke out of the confines of "morality" to chart his own ethical path, and struggle with what was right or wrong for him, socially-imposed "rules" be damned. That doesn't of course mean Sisko did the right thing- he's still struggling, as he should be. Self-examination at all times is key. And did he do right or wrong here? Well, we can debate that all day if we like- I can't come to any one clear answer, and neither can Sisko, I think. He "can live with it", yet is clearly disgusted with himself at the same time. Sisko is struggling with his own ethics, which is always far more endearing to me than any story about "morality", simply because I distrust and reject morality- if my meaning is clear. This episode is about one person's ethical struggles, which is better than TNG or Voy episodes concerned with a "moral" position that disregards personal considerations.
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