Set F4SE to PRIMARY, then you can start the game however you like. Skyrim SKSE shown but the steps are the same, click the 3 small vertical dots on the tool in the dahsboard, and select MAKE PRIMARY, it will end up with a small white banner showing it's set to Primamry (shown) and will uatomatically run when you start Fallout 4 Also, SETTINGS--->INTERFACE turn on DEPLOY MODS WHEN ENABLED, and turn on ENABLE MODS WHEN INSTALLED. That way, after downloading a mod and you click INSTALL, all of the other steps will be done automatically from now on Hey thanks this has fixed everything