Newcastle were only awarded a share of the spoils after the Belgian striker had an 87th-minute header ruled out by VAR in Graeme Jones' first match as interim manager.
Story of the game
Patrick Viera made one change to the Palace team that drew 2-2 at Arsenal as Michael Olise replaced Jordan Ayew in the starting line-up, but surprisingly Wilfried Zaha was only named on the bench after missing out due to illness at the Emirates Stadium.
There were 2,800 travelling supporters in a sold-out away end at Selhurst Park and they saw Newcastle's first chance arrive nine minutes in, albeit a tame one, when Allan Saint-Maximin's soft header was easily gathered by Vicente Guaita.
Palace dominated the possession in the opening exchanges but were unable to create any real clear-cut chances while The Magpies came close through Matt Ritchie's free-kick as Jamaal Lascelles headed the ball back across to Krafth, whose effort was blocked by Marc Guehi and the rebound fell to Wilson, but the forward failed to hit the target and struck the side-netting.
The hosts created the best opportunity of the first-half on 21 minutes and Palace should have broken the deadlock as Benteke met Olise's inviting cross and crashed his close-range header against the foot of the post.
Newcastle were presented with a great chance six minutes before the break when Wilson's well-weighted pass released Saint-Maximin, but the Frenchman was stopped in his tracks by Guehi, who came to The Eagles aid with a perfectly-timed challenge.
It was a fairly subdued first-half in South London with neither side able to cause the other too many problems, but Palace, in particular, will be more frustrated having missed a golden chance through Benteke.
The Belgian then wasted his second opportunity in front of goal just five minutes into the second half as the forward read Conor Gallagher's delivery and attempted an acrobatic effort that sailed just over the crossbar.
Though at the third time of asking, Benteke made no mistake on 56 minutes and Selhurst Park erupted when he nodded in Tyrick Mitchell's floated cross into the bottom corner.
Benteke, who was causing The Magpies' defence all sorts of issues, almost added a second when he combined well with Olise once more and forced Karl Darlow to tip his headed effort onto the crossbar.
Newcastle were second best but astonishingly found themselves on level terms on 65 minutes after Palace failed to clear a corner and Wilson delivered a jaw-dropping overhead kick beyond Guaita for his fourth goal of the season.
Palace tried to not let the setback faze them and Benteke, after being played in one-on-one by James McArthur, wasted another clear-cut chance and somehow slotted wide of the target.
And in dramatic scenes in the final three minutes, Palace thought they had claimed a late winner as Benteke powered home his second header of the afternoon from a corner, but VAR quickly intervened as Guehi had hold of Ciaran Clark's shirt and referee Darren England checked his monitor and without hesitation ruled the goal out, as Newcastle miraculously held on for a point.
Palace the better side but lack of cutting edge costs them two points
Benteke along with The Eagles supporters will be left wondering how he didn't score a hat-trick. The Belgian struck the woodwork in both halves, missed a one-on-one and had a late goal ruled out by VAR.
Viera has settled in really well at Palace and got them playing much more attacking football than they did under Roy Hodgson, but despite a promising start to the season at Selhurst Park where they still remain unbeaten, he'll be disappointed that this was his sixth draw of the campaign, especially against a Newcastle side who have now conceded 20 goals in nine matches.
Wilson to the rescue for Newcastle
The Magpies are one of only two sides yet to keep a clean sheet in the top-flight this season and even the introduction of Jones in the dugout couldn't stop them from conceding yet again. Newcastle were perhaps fortunate that they were still in the contest when Wilson was able to produce a moment of individual brilliance to rescue a draw.
But with the number nine on the scoresheet for the second week running since returning from injury, Jones will be satisfied that the team showed resilience and can now look to build on this performance and try to find that elusive first win of the season next weekend against Chelsea.
Crystal Palace: Guaita; Ward, Andersen, Guehi, Mitchell; Milivojevic, McArthur; Olise, Gallagher, Edouard; Benteke. (4-2-3-1)
Newcastle United: Darlow; Krafth, Lascelles, Clark; Manquillo, Hayden, S. Longstaff, Ritchie; Saint-Maximin, Fraser; Wilson. (3-4-2-1)