I'm attempting to dock a squadron of fighters onto a capital ship just like ive done dozens of times, but now I get the following msg:
"The onboard computer has not had time to process the new information yet. Please either access the cockpit controls again in a moment, or exit the room and return. Control will be restored momentarily. "
Usually that message is given when you have been assigned as pilot after you were already in the cockpit. If its a fighter, you can either exit/enter, though just clicking on the room travel link should reset it and make it fine for you to use.