Theres 9 fruits of the holy spirit, but my catholicism book lists 12 gifts, why aren't those 3 included???

One thing to be careful of is that you are interchanging "Fruits" and "Gifts." The fruits of the spirit are things such as patience, self control, etc. Spiritual gifts are things such as prophecy, preaching, teaching, etc. Very different. Fruits of the spirit mean characteristics which show the Holy Spirit is present. Spiritual gifts take it a step further and are gifts imparted by the spirit to individuals to help show the spirit to others.