Whistler Joe Ross accused the player of using bad language and sent him off after his second booking.
That would have ruled Windass out of today's match against Colchester United at Valley Parade.
The decision though was subsequently reversed but Windass, who denied saying anything offensive, is still in trouble with the Football Association after being charged with improper conduct.
And he is not the only one under investigation after the Bantams slumped to a 4-0 defeat at Kenilworth Road.
Colin Todd has been charged with a similar offence. The Bantams boss however believes Mr Ross should face a probe into his behaviour.