And since the Federation and also the Star Fleet have an ideal of tolerance, IMHO it was a wise decision to ban augmentation (against the background of the Eugenic Wars) but to judge wisely if a single person really is a threat or not.

I don’t think they made the case that banning augmentation made sense just because there were some augments historically that were megalomaniac war lords. One thing that’s always bothered me since I listened to Mission Log on TOS was how Star Trek was so sure that everyone always had to do things “the hard way” and always had to be striving to be more. The anti android, anti augment, anti too much automation all ties back to this in some way I think. But of course - this isn’t really justified very well.