seems like you have got most items figured out, the oil cap is actually the PCV for this engine, if that is not connected your oil will become tar like gel. It is vital and mandatory.
check the lower vacuum pipes of the carburettor, one should have high vacuum at idle speed, the little plastic filter connects there, be sure that its dirty side faces the carburettor, then use the 4 way port and use one of the top ports to connect to the power valve vacuum port which is on the very top of the carburettor.
One vacuum line from the 4 way goes to the blue or yellow electric vent valve that is clipped to the air cleaner. The other goes to the distributor advance main port.
The distributor then connects to a vacuum port on the carburettor that is the TP port, which should have vacuum only when you start to open the throttle. It goes directly to it, there should be another port on the carburettor doing the same job, which is used by the dashpot. ensure the dashpot is releasing slowly.
I would like you to make sure of a vacuum pod function - the one with the convoluted rod that is by the choke mechanism - what does it operate when you move it by hand, if its opening the throttle then its the A/C idle up and it should also have an adjustment screw, this connects to the A/C idle up solenoid - which takes vacuum from the main line. The 3 way is used for this.
If its a choke breaker then you would also have a yellow colour vacuum valve screwed into the head near the distributor, its a thermal valve and is used to open activate the choke breaker.
One water line is from the manifold and one from the cylinder head, make sure the ports are not packed with rust or that metal is not missing.