From an electronic engineers perspective the way
Crg has described it is the way to go. I would leave existing connector on main board but cut wires about 2 " back. Then get fan of same size and dimensions and voltage rating etc and remove whatever connector is on that and solder to wires and heat shrink etc..
Fans have a little arrow which details the direction of airflow so it is important to put any new fan in the same way direction wise.
(Is it sucking air in or blowing air out?) I had the system too while working for Roland and it was quiet for me too. I think
Zo is one of the unlucky ones that must have got a noisy one or it started out OK and got noisy quickly. One needs to measure the voltage on the fan because they can run at mains AC voltages or low DC voltages as well. And let us hope that it used a standard sort of voltage as well. It is a bit silly that an audio interface even needs a fan at all. They have packed too much inside that chassis.