The idea of using 2 different batteries is gone by the way side now a days with the twin 4-tec engines. If you want to use a single battery be sure you have enough room and larger cables from the battery as well. You will have to disconnect one return rectifier/ regulator so as not to over charge the battery from both engines. The stock design is to have each engine charge each battery separately. You will need a wire diagram to remove the correct wires from the charging system....or just buy 2 cheaper batteries and leave it alone. That's a 1995 seadoo... 14 years old, I would spend my money if it was me, on keeping it running...just my personal opinion.
Karl