If the hoses you speak of, come from the valve cover, and the transmission, then they are vent hoses, and can not be plugged. If you do, there is a very good chance your oil seals will let go, causing more problems.
A lot of people place a small fuel filter on the ends of these hoses, and zip tie them somewhere out of the way. I made a catch can for my valve cover hose (crankcase vent), just so I could monitor the amount and contents of blowby gases. Photos of it can be found in my profile, under "My Stuff", on the right side of page, or in the link contained in the first post of this thread.
http://scootdawg.net/showthread.php?t=54327