Ok not a Oficial continuos universe, that as already say, could be hard to code...
But what about to add a funtion to Fred?
-"END-MISSION-> Load xxx.fs2", "Force Jump-> Load xxx.fs2", "If player Jump Out-> Load xxx.fs2" ((the player ship, wing, weapons, missiles, damage and everything should the same that in previus mission (I already see this in some FS1 retail mission so is posible or already implemented )). the "Load xxx.fs2" should be also avalible in debriefing, so, a mission maker can select what is the next mission acording to the result of the previus one... Basically you can create a campaing, but whiout create a camping, because you will no know what is the next mission.
Which only this you can create the whole universe thogether, and manage the next jump using nav points... and its also have a great multiplayer playability (if the join in-game works

).
-Allow that a mission should not have a briefing... not even a red alert one, just load and you are in-game, that is great to make the "Return to Base"...
To give you an example:
1) Alpha and Beta Wings finished an atack against a Cruiser, the mission is over, "Command: This mission is finished, Jump back to base", Player: Alt+J, when the image where the player enter subspace finished, the mission ends and Load another map, when finished loading the player, Alpha, beta, Which the damage, weapons, and everything as their are when the player jump out apear in this other map whiout a Briefing, or red alert message, where their have its "base" "Base: Alpha, Beta your are clear to land, Well Done" and their manualy land and finally finish the mission, officialy this should be "If player Jump Out-> Load xxx.fs2", the manual land dont need anything, just a waypoint in the hangar and when the player is close, end mission, nothing more.
The only problem is to save the data of the previus mission.... that going to be needed for the debrief Text.... and even the data on the fighters... if all back, damage, and everything... Maybe a Temp File?
Lets see: Maybe a Export mission data? The mission maker can make the debrief text in he previus mission and...
The mission:
>Command: This Mission is finished jump back to base
>Export: Ship Data to: xxx.xxx
>Export: Debriefing data to: xxx.xxx
>"If player Jump Out-> Load xxx.fs2"
The "Return to Base" Mission, whiout briefing, and anyting, just finished load and their are ingame:
>Import: Ships data from: xxx.xxx
>Import: Debriefing data from: xxx.xxx
>(oficially the player enter in-game at this point)
>Base: Good Work, you are clear to land.
Even this sound hard to make...