Wow, changing coolant every year seems overkill to me. However, if that is what Yanmar recommends, who am I to say different! Do you flush the coolant side annually as well?
I certainly second what Sunchaser has to say about servicing the raw water aftercoolers. There are many reasons to take them apart for a complete service every 2-3 years. First, the raw water tubes can foul up and require rodding out or cleaned with a mild acid (tubes only). Second, the air side clogs up with oily contaminants and can ultimately reduce air supply to the engine affecting performance. And third, most brands of these aftercoolers (Cummins for sure) are a mix of dissimilar metals put into an electolyte (salt water) that can cause large corrosion issues (one metal sacrifices itself (anode) for the other metal). Check out sbmar.com (a commercial site that also provides tons of free information for DIYers) for more detailed info. As can be seen in Tony's (site owner) aftercooler disasters, leaving these things alone can get very expensive.
By the way, I have no affiliation with that site or with Tony, just happy I found his site and info.
Regards,
Tom