If you ship is sitting in the port, then AI fleet attacking the port will merely blockade it (not destroy; not attack your ship). The only way the game allows your ship to be kicked out is if an enemy land unit enters the port. I suppose that could be a threat after the upcoming patch sine AI sea invasions will become possible: but for now, a boat in the port protects it as well as a garrison.
I have yet to see anything that would be more difficult on VH (than on medium) strategic map settings in the vanilla game...
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