nope Leaving the scene in would have made the game rate a "D" in Japan, which corresponds to an M-rating in the United States. The game has been rated as T in the US (13 years-old) and creator Hideo Kojima is not happy about the differing standards.
While it isn't known what the scene depicts, Kojima has commented on the issue saying: "There's tolerance for fantasy games, but for games where you show war or real violence between people, you apparently can't complain about anything. With this, it seems impossible to communicate something through games."
Metal Gear Solid: Peace Walker will be released in Japan on April 28 with the US release following on June 8. The European release slides in a bit later at June 17.