In the first of two meetings between the teams at the Parc des Princes either side of the international break, the difference was a series of mistakes by Lille at key moments.
Coupe de France: Marseille dumped out by fourth-division side Canet-en-Roussillon; Lille ease into last 16
Marseille, who sit eighth in Ligue 1, have now only won two of their last 14 games in all competitions.
In another upset Saturday, fourth-tier Le Puy beat Ligue 1 strugglers Lorient 1-0.
European football matchday: Chelsea face second-tier Barnsley in FA Cup; Athletic Bilbao host Levante in Copa del Rey
Rennes travel to face first-division rival Angers and Saint-Etienne go to second-tier Sochaux in the French Cup’s remaining round of 64 games.
As the game resumed, Neymar continued to complain before walking down the tunnel to the dressing room in the 57th minute.
French Cup: Paris Saint-Germain beat Saint-Etienne to clinch title as Kylian Mbappe limps off with ankle injury
Neymar struck Paris Saint-Germain's opening goal from close range in the 14th after goalkeeper Jessy Moulin saved Mbappé's shot.
Paris Saint-Germain's Edinson Cavani, Thomas Meunier reject offers for short-term contract extensions
Edinson Cavani and Thomas Meunier have declined to sign short-term contract extensions that would allow them to play cup finals and the Champions League final tournament with Paris St Germain, French radio RMC reported on Sunday.
Coronavirus Outbreak: Former Marseille president Pape Diouf passes away aged 68 after contracting COVID-19
Former Olympique de Marseille president Pape Diouf has died aged 68 after contracting the coronavirus, the Ligue 1 club announced on Tuesday.
Kylian Mbappe scored a hat-trick as Paris St Germain thrashed 10-man Olympique Lyonnais 5-1 on Wednesday to reach the French Cup final and remain on course for a domestic treble.
French Cup: Pablo Sarabia nets brace as Paris Saint-Germain complete thumping win over Dijon to seal semi-final spot
Paris Saint-Germain’s Pablo Sarabia scored twice as they swept past Dijon and into the semi-finals of the French Cup with a 6-1 thrashing on Wednesday.
French Cup: Fourth-tier club Epinal stun Lille to reach quarter-final; Paris Saint-Germain thump Pau FC
Striker Jean-Philippe Krasso scored both goals for Epinal, which could meet fellow fourth-tier side Belfort in the last eight. Belfort beat first-division Montpellier in a penalty shootout on Tuesday.
Paris Saint-Germain's Neymar escapes with just a warning for slapping fan during French Cup final defeat
Neymar will escape prosecution for an altercation with a Rennes supporter after Paris Saint-Germain's surprise defeat in the French Cup final in April, sources told AFP on Monday.
Ligue 1: Neymar helps Paris Saint-Germain end three-match losing streak with win at Angers; Monaco slip closer to relegation
Neymar responded to being handed a three-match ban by scoring as champions Paris Saint-Germain ended their three-match losing streak with a win at Angers.
Ligue 1: Paris Saint-Germain striker Neymar handed three-match ban for lashing out at fan after French Cup final
Meanwhile, Brazilian star Neymar has appealed against a three-match Champions League ban imposed by European football's governing body UEFA for his actions after a match between PSG and Manchester United
Thomas Tuchel criticises Paris Saint-Germain forward Neymar for getting into fight with a fan after French Cup defeat
Thomas Tuchel on Monday blasted Neymar for hitting a fan who insulted Paris Saint-Germain players as they filed up to collect their French Cup losers' medals
Coupe de France: Neymar admits he was wrong to punch fan after PSG's shock French Cup final loss to Rennes
Neymar accepted that he had made a mistake striking a fan who insulted Paris Saint-Germain players as they went to collect their French Cup losers' medals.
Kylian Mbappe sent off as Paris Saint-Germain crash to penalty-shootout defeat in French Cup final against Rennes
Kylian Mbappe was sent off for a shocking tackle late in extra time as Paris Saint-Germain were stunned by Rennes in Saturday's French Cup final, losing 6-5 on penalties after a dramatic game finished 2-2 at the end of extra time.
French Cup: Memphis Depay ends three and a half month goal drought in Lyon's quarter-final win over Caen
Former Manchester United star Memphis Depay ended his three and a half month goal drought on Wednesday when he was on target in Lyon's 3-1 French Cup win over Caen.
Ligue 1: Paris Saint-Germain star Neymar says he cried for two days after injuring right foot for second time in January
Neymar "cried for two days" after injuring his right foot for a second time in January
French Cup: Moussa Dembele continues rich vein of form to help Lyon book quarter-final berth at Guingamp's expense
Former Celtic striker Moussa Dembele continued his strong run of form with the opening goal as Lyon saw off Guingamp 2-1 to reach the French Cup quarter-finals on Thursday.