Ken,
Don't know how far you have progressed so I will start at the beginning. The original owner of my boat installed a Cruisair emerald "split" system. So my system set up won't be any help to you.
I did charter a 343 many times that had the factory setup. It was a 12k btu self contained Cruisair. The water intake (bronze thru hull & ball valve), strainer , & March circulating pump are located under the aft berth just left of the plywood panel adjacent to the water heater. The circulating pump may have been mounted to the panel/divider. This location is somewhat inconvenient for opening/closing the ball valve & cleaning the strainer. A hose is routed to the self contained air conditioner that is located at the aft end of the port settee. The water discharge line is a short straight run from the unit out the side of the hull. Mount the bronze thru hull fitting above the water line, preferably on the wide green boot stripe so the discharge water doesn't discolor the white gel coat. Return air grills(2) are mounted at the port setee, one facing inboard & one facing forward. The flexible duct comes off the unit & into a plastic "T" manifold. The duct running aft goes thru the galley cabinets, under the oven, & up thru the port locker in the aft berth. The duct terminates into a round adjustable plastic vent on the aft surface of the locker. The forward duct attaches to a plenum with a horizontal teak vent mounted on the portside shelf midway along the setee. From the forward end of the plenum, another piece of ducting runs forward into the port locker where it terminates into a round plastic adjustable vent that is mounted on the forward surface of the locker. You will have to install a condensator or a self contained shower sump with pump to prevent the condensate from draining into the bilge. Beneteau urges that you use a completely separate power source for the air conditioner, so that means an additional shore power cord, another transom mounted Hubble power inlet (mounted below the existing inlet), double pole circuit breaker in the lazerette (mounted inboard of the power inlet), and finally a power panel with breakers mounted on the forward facing panel above the chart table. You can use a stock Blue Sea panel or you can have Beneteau order one from their original source. The digital control / thermostat is also mounted above the chart table. I think that just about wraps it up!!! Let me know if you have any questions or need more.