TL;DR
Mod settings have to be configured save by save. Not the global settings of game.What ?
Mainly- Save mod settings per save (it seems it does)
- Load mods when saved game is loading
Configuring Mods
- When starting new game, show mod list to choose which mods will be activated. default settings will be ALL activated.
- Do not apply new installed mods in saved game.
- add new system: apply some mods in this play: will save and reload the game with mods.
Why ?
I tried to play multiple saves. Some with mods, and some vanilla factorio plays.When i want to play vanilla saves, I have to disable all mods. And When I jumped to vanilla to modded play, all mods are going disabled.
When I want to play modded saves, I have to enable all mods (or some). And when I jumped to modded to vanilla, all modes are being enabled.
It is annoying.