Update

[ringringllingling]

So I've been informed that you are actually supposed to add the bonuses from factions and backgrounds PRIOR to adding skill points, and morph bonuses AFTER. Seems ass backwards to me, but whatever, I modified my code so that it works the way it should:

public class TallyHo2 {

    // TODO code application logic here
    // a = ego aptitude
    // b = total number of character points spent
    // c = total number of character points spent over 60
    // y = expert trait true or false
    // x = base skill
    // z = final skill (prior to spending rez points)
    // r = bonus from morph
    // s = bonus from background + faction

static int tally(int a, int b, int r, int s, boolean y){
    int c = (a+b+s)-60;
    int x = (60 + c/2); //rounded down
    int z = 0;
    if(y == true){
        if(x+r>90){
            z=90;
        }
        else{
            z = x+r;
        }
    }
    else if(y==false){
        if(x+r>80){
            z=80;
        }
        else{
            z = x+r;
        }
    }
    return z;
}

}