The youngster, who was making his Premier League debut in the Sunday game, connected sharply with the left back's knee during the first half of the 2-1 win, with Magpies manager Alan Pardew claiming after the game that the Frenchman had suffered ligament damage.
McManaman, who escaped with punishment from referee Mark Halsey at the time, will now face no action from the FA.
"The FA can confirm that no action can be taken against Wigan Athletic's Callum McManaman retrospectively following his side's game against Newcastle United on Sunday 17 March 2013," the FA wrote in a statement.
"Following consultation with the game's stakeholders (the Premier League, the Football League, the Professional Footballers’ Association, the League Managers’ Association, Professional Game Match Officials Limited and the National Game) in the summer, it was agreed that retrospective action should only be taken in respect of incidents which have not been seen by the match officials.
"Where one of the officials has seen a coming together of players, no retrospective action should be taken, regardless of whether he or she witnessed the full or particular nature of the challenge. This is to avoid the re-refereeing of incidents.
"In the case of McManaman, it has been confirmed that at least one of the match officials saw the coming together, though not the full extent of the challenge. In these circumstances retrospective action cannot be taken.
"The principal objective behind the not seen policy is to address off the ball incidents where match officials are unlikely to be in a position to witness misconduct."