The Manchester United striker did not score in any of England's four games in South Africa and appeared to have been affected by an injury picked up towards the end of last season.
FIFA's technical report, which has been published today, picks out Rooney, Ashley Cole and Steven Gerrard as England's outstanding players.
Rooney is described as a "hard-working, energetic striker; worked hard for team; good technique".
Liverpool midfielder Gerrard was picked out as England's most influential player and praised as a "dynamic midfielder with good vision and technique, who linked defence and attack".
Cole, generally recognised as England's best player in the tournament, was described as a "competitive left-back with good technique, made forceful attacking runs".
The report was put together by FIFA's 16-man technical study group, including former Liverpool manager Gerard Houllier and ex-Scotland boss and now UEFA technical director Andy Roxburgh.
The report on England stresses "strong, hard-working players" with "aerial strength used effectively at set pieces in defence".