On our 2003 390, the tubes inside each support post connect to the drain boxes on their respected sides, as do the deck drains, and exit the boat at the aft corners. I've had issues with those boxes on our boat, and they're next to impossible to access, or even see. Perhaps you have a hose or two that has come loose, and when that happens the rain water will end up in the mid-bilge area. I did manage to access the port drain box enough to tighten the hose clamps, but the starboard one is just impossible w/o removing the water tank, so I re-routed all the hoses that connected to it and sealed it off.
Good luck,
Nick