Bukkit

• Completely reprogrammed CommandBin
• Made all commands accept arguments (eg /nick Cain, or /nick Cain DerpyCain)
• Optimised coding, a lot
• Cleaner, more efficient coding
• Changed the style of the messages received
• Fixed /put putting you into blocks
• Added a /hat command

The following Commands were removed:

• /blind
• /createworld
• /creative
• /disablehardcore
• /drunk
• /enablehardcore
• /explosionbow
• /getxp
• /gmo
• /growtree
• /home
• /isvanished
• /join
• /leave
• /mhome
• /msethome
• /potion

This is the biggest change in CommandBin History. It may require that you need to change your permission nodes completely.

None that I am currently aware of.