Thembinkosi Lorch popped up with the winning goal five minutes from time to silence the partisan 75,000-capacity crowd in Cairo and shatter Egyptian hopes of a record eighth continental crown.
Griezmann, a Barcelona target, had already said he would not turn up, Madrid sports daily Marca reported on Saturday, with Atletico then telling AFP that "it changes nothing".
The Pharaohs were billed as chief title contenders on home soil, having won three of four previous editions as hosts, but crashed out on Saturday following a shock 1-0 loss to South Africa.
In their third consecutive final, the USA were too strong for the Netherlands as they won 2-0 in Lyon to retain their title with Megan Rapinoe and Rose Lavelle scoring.
The decision had been "a moral obligation" said the Egyptian FA in a statement after "disappointing Egypt's supporters" in a 1-0 defeat to South Africa.