If you got the new bottom end from the same guy that you got that cork gasket from, then I would say that splitting the bottom end and checking it over is probably mandatory now. The reason is that if he is making his own parts like that, then you need to open it up to see what else he has cobbled up.
Since you already have the clutch cover off, it shouldn't be that big of deal once you have made a suitable stand for it. You don't need to replace any bearings or seals unless they are bad. The only thing you need to put it back together is Hondabond HT (available at your local Honda dealer). Don't use regular RTV because it doesn't hold up. Oh, and you will also need a torque wrench ($10 @ harbor freight).
Most everything is obvious as to how it goes back together, but if its your first time, you should video record it or take lots of still photos. You also have a known good bottom end (albeit broken) that you can use as a reference.
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