The new system doesn't support micro like this. The days of perfectly designing each and every pop for each and every job are mostly over. You should either accept that a species is only going to make use of their traits part of the time or use generic traits that apply to everything.
There is some space to do this kind of specialization, but you have to do it on a planet level. If you dedicate a world mostly to mining, you can gene mod that whole population to have bonuses to minerals and even control growth so that the right pops grow. Both of these systems work well on a planet level. But optimizing on the pop level isn't something you're supposed to do anymore.
