Different year models vary however:
The crankcase breather tube should go from the top of the center head cover to the airbox. The vent line underneath should be the excess gunk dump line from the airbox.
It sounds like the head cover (cylinder head cover with the rocker arms) has a leaking seal. That upper seal is prone to leaking if the bolts aren't torqued down properly. The main head gasket is below the level of the spark plugs where the large finned piece attaches to the cylinder jug case. There is no pressurized oil at the head gasket area between the cylinders - it' gravity drop between #2/#3 down to the crank case.
If you're taking the heads off, save yourself a lot of hassle and just get all the rubber seals that are involved in the dissassembly and replace them as you go. Look close at the manual. On mine there are two tiny rubber O-rings at the head gasket level outboard of the #1 and #4 cylinders. That's the path where the oil comes up from the oil pump to the heads. Those O-rings are essential to keep the oil from leaking.
If there's the occasional strange chain/metal type rattle from the center of the engine between the #2/#3 cylinders, it's probably the cam chain.
If that is the case, then you will need a new cam chain and/or tensioner
Or use the pennytech fix procedure that's in the manual:
Transmission in netural.
Ignition and kill switch off.
Remove pulse generator cover.
Loosen camp chain tensioner lock nut. (located on the lower back of the cylinders between #2 and #3)
Tighten the cam chain lock nut while slowly rotating the crankshaft clockwise. (cam chan locknut torque = 7-10 ft/lbs)
Reinstall pulse generator cover.
Done.
If that doesn't fix it, then you're into replacing the tensioner and/or chain. The tensioner comes out the top easily. Replacing the cam chain is MAJOR surgery and involves splitting the case.
Note that if you're taking the heads off, retensioning is in the reinstall procedure when hanging the cam chain on the valve cam.