Malik, 22, quit the group in March earlier this year and his pop star fiancee Edwards came under fire from fans, who blamed her for his exit.
His exit was announced shortly after the singer was accused of cheating on his 21-year-old fiancee while his band was on tour in Thailand, reported Contactmusic.
"It was his decision and nothing to do with Perrie. They've always been happy... Zayn's one of the nicest boys I've ever met and I couldn't imagine Perrie with anyone else.
The pair began dating in 2012 and got engaged in 2013.