What's to consider?
The skipper, who should and could, have defended the ship if there was a genuine threat, should be relieved of command.
(If their was no genuine threat there is no problem)
I'm sure that a skipper of a Navel vessel does not have complete authorization to act, in Global power politics. The potential for starting an ugly "international incident" is high. Such provocations towards military vessels near hostile countries is how many wars start. One that comes to mind is the Tonkin Gulf incident, which is generally attributed to being the pretext to escalating the U.S. involvement in Vietnam.