I was just looking back through this thread and noted that in my first post I suggested the coupler with no explanation. I'm sure you got the point, but I should add a little explanation for anyone else that might be reading this.
If the pump shaft is not perfectly aligned with the crankshaft, the shaft connecting them together may be putting some side force on the pump shaft. Such force could damage the pump, including but not limited to damaging the seal. Couplers like this are commonly used on hydraulic pumps because perfect alignment is nearly impossible.
Other discussion in this thread has been down another path that seems more likely as the fix for the current problem. But adding a coupler like this is still probably a good step for long term use.
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