i think the best bet for a freespace trade mod would be to do several mission files per system, at various locations centering around planets, installations, jump nodes, ect. nodes connect the systems, so you have to intra jump to a part of system with a node and then inter jump from the node. each section would have its own ais and general traffic. some held by pirates others held by the gtva. you would have ascript to use to control your intra system drive, inter system jumps are triggered by alt-j at a node. there would be some places to land.
landing can be done fairly easy. you can create a dummy subsystem inside the landing bay and when you come to a point within it the mission ends. then when the next mission loads (its the same one), you go to a briefing, where a scripted trade interface is displayed instead of a briefing (through a state hook). you can then buy and sell cargo and equipment, rent a freighter, wingman, military gaurd, hell even a warship. when you commit you launch from where you left off. the tricky part is to set up the missions so that you spawn from an appropriate place. only problem is making the universe complex enough to make it all fun.