Liquidation of the synths is a goal but it ' s not terribly systematic . They knew nothing of the colony up north , for example , and it was a terribly good stroke of luck I happened upon it . Especially considering that that colony , despite being free synths allegedly opposed to the Institute , was resorting to the Institute ' s corrupt and evil methods of their own volition and even worse . It is proof positive that they cannot be trusted and that the Commonwealth , and , indeed , the world , cannot endure halfsynth and halfhuman . As for my SS , this is completely a secondary goal , or an indirect one . What is most important is the complete destruction of the root of the problem , which is the Institute . Eradication of the synths will be unnecessary after that as they will die out naturally and by attrition .