Fulham scored two late goals to secure an unlikely win after Jimmy Bullard went off with a serious knee injury.
Bullard missed just two league games in two seasons for Wigan
Both Fulham's goals came from their Americans, with Brian McBride steering a shot past Shay Given to convert Wayne Routledge's cross on 82 minutes.
Substitute Carlos Bocanegra then scored from close range after McBride's header hit the bar following a Fulham corner.
Newcastle had looked set to win the game after taking the lead through a fine Scott Parker header on 54 minutes.
Parker was involved in the first-half's key incident when he was tackled by Bullard, who was stretchered off in tears.
Parker had been one of the few players to stand out in an insipid first-half played out in autumnal sunshine.
He looked upset by the seriousness of Bullard's injury and Newcastle manager Glenn Roeder had to speak to his midfielder for a long time as the Fulham midfielder received treatment.
After a considerable delay Bullard was carried off with his right leg protected by a splint.
Newcastle had dominated possession in the opening half, but struggled to make the best use of it when the ball reached the Fulham penalty area.
Shola Amoebi was too often let down by his first touch, while Obafemi Martins was restricted to long-range efforts.
Newcastle's best efforts came from two of their left-footed players - Damien Duff and Charles N'Zogbia.
After good work by N'Zogbia, Duff's cross unsettled Fulham, before Ian Pearce cleared the ball.
N'Zogbia also got himself in a dangerous position only to be hustled off the ball by Liam Rosenior.
In first-half stoppage time Newcastle switched their point of attack to the right and Stephen Carr went close with a rising shot.
Apart from a couple of McBride headers, Fulham were almost anonymous as an attacking force in the opening 45 minutes.
Immediately after the restart Fulham finally got into the Newcastle box, but Peter Ramage did well to get back and cut out Wayne Routledge's cross.
That fleeting attack proved a brief reprieve for Fulham.
Rediscovering the drive he had shown in the opening period Parker dashed into the box to steer a header past Antti Niemi with Rosenior unable to stop the Newcastle midfielder meeting Emre's superb cross.
Fulham suffered a further injury blow when Zat Knight went off to be replaced by Bocanegra.
Given had not been required to make a serious save up to this point, but somehow the Newcastle keeper had to pick the ball out of the net twice in the last eight minutes.
Fulham finally strung a series of passes together and McBride was on hand to volley in Routledge's cross.
And with a minute left Bocanegra forced the ball over the line after McBride hit the bar with a header after a Fulham corner.
Newcastle manager Glenn Roeder:
"We've conceded two bad goals.
"Individual mistakes have cost us - we were in the position to take three points, but we've taken nothing.
"The players concerned have held up their hands, but we now have to pick up ourselves and look forward to Thursday."
Fulham manager Chris Coleman:
"We didn't have loads of chances, but our players kept digging in and we got our rewards in the end.
"Last year we played some great stuff and we came away with nothing,
"This is a big win for us to come away from Newcastle with three points."
Newcastle: Given, Carr, Bramble, Moore, Ramage, Duff,
Parker (Butt 80), Emre, N'Zogbia, Ameobi, Martins (Rossi 72).
Subs Not Used: Harper, Solano, Sibierski.
Goals: Parker 54.
Fulham: Niemi, Rosenior, Knight (Bocanegra 78), Pearce,
Queudrue, Diop (Radzinski 83), Brown, Bullard (Routledge 34),
Boa Morte, John, McBride.
Subs Not Used: Lastuvka, Helguson.
Goals: McBride 82, Bocanegra 89.
Ref: C Foy (Merseyside).