Color
While the Xbox 360 Elite is colored black with a chrome disc drive, the Halo Xbox 360 has the colors of Master Chief's armor: green and gold. The controllers that come with their respective systems have similar colors.
Games
The Halo Xbox 360 came with a copy of the "Halo 3" video game, while the Xbox 360 Elite generally came with two games (originally, the games were "Forza Motorsport 2" and "Lego Indiana Jones.")
Cost
The Xbox 360 Elite was much more expensive than the Halo Xbox 360. At the time of release, the Halo Xbox 360 was $399.99, while the Elite was priced at $449.99.
Hard Drive
The Halo Xbox 360 also has a much smaller hard drive than the Xbox 360 Elite. The Halo hard drive is 20 GB, while the Elite hard drive is 120 GB.
Packaged Cables
The Elite came packaged with a High-Definition Multimedia Interface cable to accommodate the Xbox's HDMI port. While the Halo Xbox had an HDMI port, it did not come with an HDMI cable. Instead, it comes with a component/composite hybrid cable.