Removed several unneeded "features," and repository noise

Transporter is rather feature rich, however, it contains support for too
many deprecated and unsupported plugins. Furthermore, things are packed
into the repository that should not be.

Removed:
  - API documentation      (unneeded)
  - Client patcher         (unneeded)
  - Inquisitor support     (unneeded)
  - NetBeans configuration (unneeded)
  - Permissions support    (deprecated)
  - Register support       (deprecated)
Use NMS/OBC via reflection for portability