I think this mechanic should be removed.
Gaining immunities or saving up to 5 skill points for giving one answer in a conversation is too powerful. It is also bad that you get nothing if you have the same amount of answers in opposing traits. This forces you to stick to one side or you end up with nothing at all. This mechanic also encourages save scumming a lot.
The best alignment system I have seen was in Pillars of Eternity. You gain traits like in D:OS, but it changes only how people react to you and what answers you can give in conversations. It does not give any skill, stat or combat related bonus.

Prof. Dr. Dr. Mad S. Tist

World leading expert of artificial stupidity.
Because there are too many people who work on artificial intelligence already