On his last visit to Montenegro, Rooney was sent off for kicking Miodrag Dzudovic, earning himself a two-match ban which ruined his Euro 2012.
The Manchester United man was one of just three members of that starting line-up to retain their places, with Joe Hart and Ashley Cole the others.
Cole was one of six changes to Roy Hodgson's starting line-up from Friday's eight-goal hammering of San Marino, which kept England two points behind Montenegro in the battle for Group H supremacy.
Skipper Steven Gerrard also returned and was joined in midfield by Michael Carrick and James Milner.
Glen Johnson shrugged off a toe injury to take his place in the starting line-up, whilst Danny Welbeck returned, becoming a fifth Manchester United player in Hodgson's team as Tom Cleverley extended his ever-present record.
England team to play Montenegro in World Cup qualifying Group H tonight: Hart, Johnson, Smalling, Lescott, Cole, Gerrard, Carrick, Milner, Cleverley, Welbeck, Rooney.