Travis & Ron...
Travis: I looked through my Yanmar parts manual to see if there was a part number call-out for the fuel pump diaphram. Unfortunately there does not appear to be one, which means you will need to replace the complete pump assembly. It is the same pump used on the 1 and 2 GM engines as well, so should be common to find and obtain (Torresons; Mack Boring or other Yanmar dealer).
As far as the first start up of the season, Warren stated the best way to do it--I do it that way too. When I actually start it, I close the engine shut-off (actually opening the fuel flow), set about 1/4 throttle, then engage one decompression lever at a time, which helps the engine quickly build RPM's, pump oil, and lets me know if I need to bleed out any air if it doesn't start right away or has trouble running on all three cylinders.
Ron: It's not the banjoe fittings that distort when tightening, it's the copper washers used as gaskets on either side of the banjoe face that won't seal as well as the first time they are compressed. Just like the old VW Bug oil plug copper gasket (and newer cars too).