The 31-year-old striker angered the Baggies by travelling to London on deadline day in January to discuss a move to QPR despite no fee having been agreed between the clubs.
The Nigeria international was disciplined by Albion and has not featured in the first team since but travelled with the squad on Monday to watch their 2-0 win over Liverpool.
He was also involved with the team in the pre-match build-up at Anfield and Clarke hopes to see him back playing soon.
"Peter makes his contribution and will make a contribution in the season going forward," said Clarke.
"He was in the dressing room (on Monday), he was delighted for his team-mates and was there to support them and help them. It is all part of what being part of a squad about."
West Brom scored twice in the last 10 minutes through Gareth McAuley and Romelu Lukaku to take the points at Anfield after Steven Gerrard had missed a penalty for the home side.
Clarke praised midfield trio Youssouf Mulumbu, Claudio Yacob and James Morrison for their contribution.
"It is the first time in a number of weeks I've had the luxury of being able to pick Mulumbu, Claudio Yacob and James Morrison in the same midfield," he said. "When they are together and everyone is doing their jobs properly we are a good team and deserve to be in the top eight."
The Baggies boss also paid testimony to strikers Shane Long and Lukaku, who is on loan this season from Chelsea.
"They are a good combination. When they play together they play well but when I have my three midfield players in there it is difficult to play both," he said.
"Sometimes I have to make difficult decisions and in recent weeks Rom, for a 19-year-old, has been carrying a lot of weight up front. So it was nice to give him a breather and the chance to come into the game to do what he did.
"Rom did well but he got the benefit of the hard work of Shane Long, who put in a hell of a shift. He came on when the game was open - we knew Liverpool would come chasing the game and we could pick them off - and fortunately for the first time this year it worked."
Premier League Top Half Finish 12/13 Top Half Finish: West Brom 1/20
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