The Italian boss suffered his first defeat en route to exiting the competition as Remi Garde's men booked a ticket into the semifinals of the Coupe de France in a pulsating tie.
Nene opened the scoring for the home side with a penalty in the 19th minute following Samuel Umtiti's handball. The Lyon restored parity with a fine free kick from Kim Kallstrom before taking the lead through Lisandro Lopez's calm finish.
Les Parisiens had the chances, and failed to take any of them, being denied by an inspired Hugo Lloris. Javier Pastore, on as a second half substitute, seemed to revitalize the team, though he, along with Blaise Matuidi, Jeremy Menez and Kevin Gameiro would be guilty of their wasteful finishing. Bafetimbi Gomis made the game safe from the spot in injury time.
Carlo Ancelotti rang the changes for the cup tie with Nicholas Douchez replacing Salvatore Sirigu in goal and the likes of Sylvain Armand and Diego Lugano were given a run-out ahead of of Mamadou Sakho and Alex. Lyon meanwhile, elected to start Samuel Umtiti in place of Bakary Kone as the team remained largely unchanged.
Despite Remi Garde's men enjoying the best of possession early on, it would be the Ligue 1 leader which created the first gilt-edged chance of the encounter. Nene, impressive in recent weeks attempted a lovely ball over the defense in towards Gameiro, though Lloris managed to see out the ball to safety.
Gameiro, who has lost his place recently to Guillaume Hoarau, who ironically starred in the enthralling 4-4 draw last month in the league, would also go close for the second time before the Parisiens would benefit from a fortuitous call.
Sylvain Armand, making his 350th appearance for the capital club and awarded the captaincy for the occasion, fired towards goal, hitting the arm of Samuel Umtiti and the referee had no hesitation in awarding the penalty. Nene stepped up to dispatch the spot kick coolly to put les Parisiens ahead.
The lead, however, only lasted for all of six minutes as les Gones responded in spectacular fashion. Kallstrom curled a free kick from 25 meters over the wall and into the back of the net leaving a bemused Douchez to ponder his positional ability as Remi Garde's men drew level.
Gameiro would again be the victim of his own profligacy as he spurned two great chances, most notably from Nene's weighted pass and into Lloris' arms, and this time, he would be punished. At the other end, Lyon countered and Kallstrom's fine cross bobbled horribly in front of Douchez, leaving Lisandro to tap into the net for 2-1.
Ancelotti attempted to reverse his side's decline with the introduction of Javier Pastore at halftime, and the the Argentine international's impact and influence told almost immediately.
Pastore opened up the les Gones rearguard with a series of through balls, and almost reaped his rewards early on as Christophe Jallet brought a fine save from Lloris with an exquisite shot.
Moments later, Lloris would be forced to action again, this time pulling off two world-class saves. Jeremy Menez, who had been impressive all evening, dribbled past two defenders and fired a low shot goalwards, only to be thwarted by the goalkeeper.
Les Parisiens went for the jugular, as their sense of urgency told with a mixture of high pressing and gung-ho attacking tempo. Pastore attempted a curling shot at Lloris, with Matuidi hooking a fine Menez ball well over the bar, arguably PSG's best chance of the second half.
For all of PSG's attacking endeavors, Remi Garde's men really should've sealed the game midway through the second half. Gomis did fantastically well to evade the offside line and selflessly squared the ball for Lisandro, only for the striker to inexplicably shoot over the bar as the Parc des Princes breathed a sigh of relief.
Remi Garde elected to defend the lead late on with the introduction of Mohamadou Dabo and Bakary Kone, which went some way into nullifying a heated PSG attack. Hoarau went close from a header, though Jallet would later be penalized for a rash challenge as Gomis made it 3-1 from the spot in the 91st minute.
Lyon now progresses to the semifinals along with amateurs US Quevilly and Grazelec Ajaccio as well as Ligue 1 side Stade Rennes. PSG meanwhile, turns its attention to the only trophy available to the team, with a tricky league tie against Bordeaux on Sunday.
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