I've also just noticed that BOSS tends to change the capitalization of some of the esp names and this causes a problem with Data Files part of Skyrim Launcher as plugins.txt is case sensitive so you need to make sure the esp names in plugins.txt match the names of the esp files exactly and then the Skyrim Launcher will load them all properly. Example: The double fall damage plugin from Wars In Skyrim. BOSS lists this plugin as WiS IV - Double fall damage.esp. The actual filename of the esp is WiS IV - Double Fall Damage.esp, which is what it needs to be listed as in plugins.txt or the launcher will not register it and will put it at the end of the load order. Just an observation.
