Hi rhpurcell,
Please clarify whether you are talking about your electric submersible bilge pump, or the manual bilge pump operated from the cockpit.
I found that even a little bit of water in the bilge tends to create a musty smell, so I try to keep the bilge as dry (and clean) as possible.
I am in the habit of using a small hand pump to empty the bilge and the area beneath the engine (water source here is from shaft packing gland) before I leave the boat. I pump into a bucket, then dump over board.
Recently replaced my failed electric submersible bilge pump. The replacement pump came with a flapper-type check valve, however the column of water described in the earlier post leaks back over time. The "tighter" a check valve, the more flow resistance it provides. Something to consider on a bilge pump discharge line, as resistance should be minimised.
I am always on the lookout for sources of leaks that contribute to filling the bilge, and I think I recently found a new one on my boat: I am in the process of rebuilding the manual bilge pump mounted on the port side cockpit wall. I removed the suction line at the pump so I could disassemble the pump. I now noticed a lot less water in the bilge. I suspect that a combination of a failed diaphragm inside the pump, and a torn "gaiter" in the cockpit have allowed water spray to leak back into the bilge when I wash down the boat. After disconnecting the discharge line, I eliminated the leak path.
Regards,
Bill