This is how to add Mods in an existing server savefile
I don't yet know if anyone has the answer, but I couldn’t find a solution. So I dug through my files, and found the answer to this question. It worked!
 
 
BEFORE YOU DO IT, MAKE SURE THAT YOU READ ALL OF THIS! !
 
 
These are the instructions you will need to follow to add subscribed Mods in your unmodified server save file.
 
 

This is how you add Mods and files to existing server saves

This is how to add Mods in an existing server savefile
 
I don't yet know if anyone has the answer, but I couldn’t find a solution. I dug through my files, and finally found the answer.
 
 
BEFORE YOU DO IT, MAKE SURE TO READ ALL THIS! !
 
 
These are the instructions you will need to follow to add subscribed Mods in your unmodded server save.
 
1: Make certain you have enabled all mods on the beginning screen. Next, restart the game.
 
 
2: You must create a new save file. Name your new galaxy something else than the one you created so they don't get confused. I used free play mode to save my original file, so I created a new game using free play mode. This is the key to making this work.
 
 
3: Once the game has started, and you have been playing for about a while, exit to your main menu and close it.
 
 
This is the most crucial part. Don't forget to follow the instructions or you will ruin your save game.
 
4: Follow this path on your PC in the file folder; C:\Users\"your user name here"\AppData\Roaming\Avorion\galaxies, C: drive is usually windows default, use your default drive. You will find both the original saved file and the modded file in the "galaxies folder".
 
 
5: Open your original saved file, select and copy (, or ctrl+c all files and folders.
 
 
6: Open the newly created modded save file. Click on a blank spot, being careful not to click in a folder or file, and then copy (.
 
 
7: This will start putting the files into that folder.
 
 
You will now need an exact copy of the unmodified version. This will allow you to have the original version, but with mods added. You can also keep the save with mods. Just start up the game, choose to load your saved game, and you will have mods added. I used a few lightweight mods so it is not clear what overhaul mods would work. However, it is possible that it will still work once you move to a new sector. I did this for a single-player game and have not tried it with multiplayer.
 
Anyway, I hope you find this helpful. I'm happy to answer any questions.

 
 
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