The couple, parents to one-year-old daughter Stormi, was alleged to have suffered a big fall out earlier in the week amid speculation that Kylie had accused Travis of cheating on her while on tour.
The news surfaced after the hip-hop star blamed illness for cancelling a Thursday night gig in Buffalo, New York, although reports suggested he had actually pulled the show so he could stay in Los Angeles to work things out with Kylie.
In an unprecedented move, the typically-private rapper then issued a statement about the allegations, insisting they were false.
"Travis Scott vehemently denies he cheated on Kylie. It is not true. He did not cheat," his representative said. "He cancelled one show tonight because he is under the weather."
Travis returned to the stage at Madison Square Garden on Saturday, and although he didn't directly address the drama, he urged fans to always "remember to keep your family first" as he closed the concert with "Sicko Mode", and walked offstage after adding a sweet shout out to Kylie, saying, "Love you, wifey".
The public declaration of love came after Travis deleted his social media pages in the wake of the unfounded cheating claims.
The couple has been dating since the spring of 2017.