the breather connects to the air cleaner so the engine will draw in clean air , the second smaller line would connect to the fuel tank / vent system , the 3 ports on the Throttle body will be manifold vacuum sources , the lager one can be used for PCV typically or powerbrakes , smaller ones can be used for vacuum gauge , cruise cont , etc . If you connected any of the 3 ports on the T body to thebreather you would just have an open vacuum leak .