The Yamaha owners manual says not to run the motor on the flush port. That said, I know mechanics that do so and says it works fine. I have tried it but it makes me nervous.I just run mine on the flush fitting - the little female hose connector right under the cowling. Any reason that isn't mentioned as an option?
For the record, some motor makers like Mercuries state in their manual that it is OK to run on the flush port.
On the Yami, the hose that the garden hose connector uses is small diameter and doesn't pass a lot of water. In addition, the motors seem in most cases to run without over heating with that hose left dangling which happens often enough