Fluorine-Manager is a Linux-native mod manager derived from Mod Organizer 2, designed to manage game modifications without altering the original game files. It employs a virtual file system (VFS) using FUSE to overlay mod files, enabling safe mod installation and conflict resolution. The application features a Qt-based GUI with extensive plugin architecture supporting Bethesda games (Skyrim, Fallout series) and non-Bethesda titles through Python and C++ plugins. Core functionality includes mod organization, load order management, BSA/BA2 archive handling, INI file manipulation, and integration with Nexus Mods and Steam/Proton for Windows game compatibility on Linux. The system follows a modular design with clear separation between core logic, game-specific implementations, and utility libraries.