chore(project): refactor "model" in places where it was accidentally renamed from its origin name

This foundational PR completely reorganizes the project to follow a modern "Package by Feature" convention. The new structure improves modularity, clarity, and aligns with best practices for large open-source Java projects.

Key Principles of the New Structure:

• Package by Feature: All distinct features are now located under a single feature package, consolidating the old base, game, and feature directories. Each feature is a self-contained module.
  
  
• Clear Top-Level Modules: Introduced a clear separation of concerns at the highest level:
  • bootstrap: Plugin lifecycle and service loading.
  • core: Essential infrastructure (database, config, profiles).
  • common: Shared utilities, replacing the old tool and util packages.
  • library: Internal frameworks for commands and menus.
  • visual: Player-facing rendering (scoreboard, nametags, etc.).
  • adapter: Integrations with external plugins.
• API vs. Internal Separation: Within each module, public APIs (interfaces, data objects) are kept at the root, while implementation details are encapsulated within an internal sub-package.

chore: prevent loading profiles upon kit creation, more robust and safe implementation for mongo data parsing and conversion, and fix scoreboard profile state variables where potential race conditions could occur