The mod tool and the main game are considered to be separate applications. That means mods you put in the _Data folder of the game and the mod tool are exclusive to each other, e.g. you can’t put the mod you want to upload to the main game folder, and the mod you put in the mod tool can’t be read by the main game.

Example of modding flow:

• Create template of the mod in mod tool
• Move the folder to the main game mod folder
• Fill the mod folder with the mod contents
• Test the mod in the main game
• Copy the folder to the mod tool mod folder
• Upload the mod

Some of these steps can obviously be skipped if you just want to upload a mod without testing it, though it is very much recommended to test the mod using the main game first.