IMO by the spring of 97 at latest all the mothballed vessels would be at sea, at least those deemed seaworthy. It depends on age and how long they were mothballed, as well as how fast crews can be found and pressed into service.
Civil aircraft in the US are in the Civil Air Reserve Fleet (CRAF), hence they would be military transports. Civil aircraft maybe more vulnerable than military to EMP, but I wonder really how much more than the military transports. The pilots that are not in the USAF Reserve or Air NG, would be flying the CRAF. Yeah a LOT of the airline pilots at the time learned to fly and got their hours in the military.
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