This happened to me in more than one ship, and one of my mates pointed out a possible solution which actually worked! If you are on the server, and it happens to restart , then before you connect to the server again, you MUST re-launch CF from the new CF launcher. If not, you will find youself being kicked from the server by the cheat detection system as soon as you launch from any base with cargo on baord.
The problem is that you log back in with outdated trade files, and they are in conflict with the latest upload of the Dynamic Universe. The best way to avoid it is to use the CF launcher every time you log into the server. I have observed many players being kicked lately, and after chatting with some, this procedure has solved their problems. Not even all the Server Police have been aware of this up till now! :]