Sometimes when you save a game when you're too near a port, and then re-load it again to go the rest of the way in, this happens. It's a stock bug. What happens is that for some reason when the save game is reloaded is that the ships are all assigned a speed instead of being told to sit there stationary. Therefore, they all go off and crash into everything. I believe the explanation is something like that.
If you decide to save your game before going into a port, try to make it about a day or so away from the port.
Ports can also be left looking like that from air attacks directed against them.
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