"I called Dave to the bathroom and told him I was bleeding. We knew I was miscarrying. We held one another and cried," she said.
"The miscarriage was a heartbreaking end to a horror tour. The ordeal from the public humiliations to the ball tampering had taken its toll and, from that moment, we decided nothing will impact our lives like that again."
The former Ironwoman said the couple, parents to daughters Ivy Mae, three, and Indi Rae, two, had been trying for a third child for months and were elated when a pregnancy test taken in Cape Town returned a positive result.
"I was beginning to feel that first stage of being pregnant — the subtle changes to my body were kicking in. We were overwhelmed, knowing another little Warner was on the way," Ms Warner told the Women's Weekly.
"I don't think either of us realised how much we longed for this baby. We had been trying since last July and I did a test when we first got to Cape Town."
Ms Warner said the 23-hour flight home from South Africa and the media scrum awaiting the family at Sydney Airport added to her stress.
She said following the ball tampering scandal her husband wanted to return to Australia with his team mates. But they were sent on separate flights and the Warner family got the longest route home.
"We got the longest and tough route. No one knew I was pregnant and Dave did everything to get me home safely, fearing any more strain could affect our unborn child," she said.
Ms Warner told the magazine she was a spiritual person.
"I truly believe it wasn't their time to be with us," she said.