Odemwingie has caused his manager several headaches since his extravagant attempts to force through a move to QPR in January and today he was greeted angrily by fans after being sent to warm up.
Clarke could not confirm whether Odemwingie exchanged words with the crowd, but admitted the incident prevented him sending the forward on.
"There was a bad reaction, the crowd let their feelings be known," said the Scot.
"When he went out the warm-up there was a negative reaction and if I'm honest the crowd reaction made me go with James and Jerome.
"I still think Peter's got a part to play in some matches but we'll deal with it from game to game."