Everything that was broken has now been fixed, including levers+buttons, pistons, anvils, commands, and more. So, the server is no longer whitelisted, and everyone can join again.
List of fixes and changes done:
Levers and buttons have been fixed.
Anvils (still only for Guards) now work properly again.
Pistons have been fixed and respond to changes in redstone again.
Players are no longer able to use /bukkit:me
Players are still not able to drop item manually (in CnR) and are also now no longer able to pick up items, so no more filling your inventory to easily pass a kit to somebody else.
You may also notice that the "toilets" in the lower level cells are no longer cauldrons; this is for something special that we are working on.