Alright, we've covered the "normal" problems that it could be. Let's delve into the really unlikely/strange.
It is completely possible that you have an airleak that only shows up during operation.
Were the cases lapped smooth before assembly?
OEM base gasket installed?
Have you ever lost, even a little bit, any transmission fluid?
What's the history of this crankshaft? Is it possible that it's not in spec for run out?
Oh ya, now were getting deep. Ok, airleak only when running? Do u have examples because idk. The cases were not lapped. I split cases and reassembled before I learned that it is something done often and might be needed. No leakes there with leakdown. squirted everthing with soapy water along with reading leakdown guage. All gaskets are Cometic. Never lost any tranny fluid. I know nothing about bottom end. When I bought it there was some problems with the top end so it is possible the bottom end has problems also.