The versatile defender, who can also play in a holding role in midfield, joined the Sky Blues in July but the club changed manager a couple of months later with former Red Mark Robins taking over the reins.
Brown's last appearance for the club was back in September in an away win at Oldham but he also picked up some useful experience in a Capital One cup tie at Arsenal.
After making 10 appearances for the Sky Blues, the 21-year-old is heading back to Manchester with the best wishes of everybody at the Ricoh Arena.
The England Under-20 international has also had loan spells with Bradford, Doncaster and Oldham.
Meanwhile, Ben Amos has also returned to the club following his stint with Hull City but, as expected, Luke Giverin's stay at Royal Antwerp has been extended.