A comprehensive guide on conflict identification and resolution is HERE. This tool is vital for cleaning mods identified by LOOT, identifying conflicts between mods and creating conflict resolution patches. LOOT will also tell you which mods require cleaning by SSEEdit. I use LOOT to sort the plugin load order in the right-hand pane of Mod Organizer 2.
A guide on Mod Organizer 2 set up is HERE. The remainder of the tools I use are launched through Mod Organizer 2. I use Mod Organizer 2 to manage mod installation. I’ve included guides that I’ve found useful in the past.
I have used the following tools to create my mod list. It is recommended to start clean with a fresh install of Skyrim.