well, both of these sounds like poor engineering to me... for one, the tubes must be too small. On the 70 footer i run, there are two fiberglass tubes that run the length of the boat, there might be PVC inside..., but it's at least 2 1/2" and they were smart enough to route all the Air con water in separate thru hulls.
on the older hatteras, i guess that if you were to plug the discharge at the bottom of the sea chests water could rise and back flow into the bilge thru the bilge pump discharges... possible, but i guess it's one of those what ifs that never happened. if it did, hopefully at least one bilge pump woudl be on a another sea chest...
let's put it this way... down south, tens of thousands of boats have their AC running 24/7 and almost 365... accidents are VERY rare, in fact i've never heard of one unless negligence was involved.
as to wear and tear, i strongly believe that unused system are more prone to failure... for instance if during winter i dont' run my AC for a few weeks, the pump has problems starting up...