Praeger is a Fellow of the Australian Academy of Science, former president of the
Australian Mathematical Society (1992–1994 and first female President of the Society), and was appointed as a member of the Order of Australia in 1999 for her service to mathematics in Australia, especially through research and professional associations.

Other awards include:
In 1993 she was awarded an honorary Doctor of Science by the Prince of Songkla University, Thailand.

In 2003 she received the Centenary Medal of the Australian Government.

In 2005 she was awarded Doctor Honoris Causis by the Université Libre de Bruxelles, Belgium.

In 2009 she was named Western Australian Scientist of the Year.

In 2011 she was awarded the Moyal Medal by Macquarie University, Australia (the first female recipient of the Medal since its establishment in 2000).

She was awarded the 2011 Euler Medal of the Institute of Combinatorics and its Applications (presented in 2017).

In 2012 she became a fellow of the American Mathematical Society.

In 2013 she was awarded the Thomas Ranken Lyle Medal by the Australian Academy of Science (the first female recipient of the Medal since its establishment in 1935).

In 2014 she was awarded the George Szekeres Medal by the Australian Mathematical Society (the first female recipient of the Medal since its establishment in 2002).

In 2014 she was elected an Honorary Member of the London Mathematical Society.

In 2015 she was awarded an honorary doctorate in Mathematics Education by Yazd University, Iran.

In 2015 she was awarded the Mehdi Behzad Prize of the Iranian Mathematical Society, for management in mathematics.

In 2015 she was awarded Honorary Doctor of Science by the University of Saint Andrews, Scotland.

In 2015 she was inducted into both the Western Australian Women's Hall of Fame and the Western Australian Science Hall of Fame.

In 2017 she was awarded Honorary Doctor of Mathematics by the University of Queensland, Australia.

In 2018 she was awarded Honorary Doctor by the University of Primorska, Slovenia.

In 2019 she was awarded the Prime Minister's Prize for Science.

in 2020 she was a Kirk Distinguished Visiting Fellow at the Isaac Newton Institute in Cambridge.

Since 2014, the Women in Mathematics Special Interest Group of the Australian Mathematical Society bestows the Cheryl E. Praeger Travel Awards to female mathematicians.
  Since 2017 the Australian Mathematics Trust has awarded the Cheryl Praeger Medal to the best performing female contestants in the Australian Mathematics Competition.

Praeger has also held memberships with the Combinatorial Mathematics Society of Australasia, Institute of Combinatorics and its Applications, Australian Mathematics Trust, American Mathematical Society, and the London Mathematical Society.
Her past affiliations have not been limited to academia.
Praeger is a Fellow of the Australian Academy of Science, former president of the
Australian Mathematical Society (1992–1994 and first female President of the Society), and was appointed as a member of the Order of Australia in 1999 for her service to mathematics in Australia, especially through research and professional associations.
Other awards include:
In 1993 she was awarded an honorary Doctor of Science by the Prince of Songkla University, Thailand.
In 2003 she received the Centenary Medal of the Australian Government.
In 2005 she was awarded Doctor Honoris Causis by the Université Libre de Bruxelles, Belgium.
In 2009 she was named Western Australian Scientist of the Year.
In 2011 she was awarded the Moyal Medal by Macquarie University, Australia (the first female recipient of the Medal since its establishment in 2000).
She was awarded the 2011 Euler Medal of the Institute of Combinatorics and its Applications (presented in 2017).
In 2012 she became a fellow of the American Mathematical Society.
In 2013 she was awarded the Thomas Ranken Lyle Medal by the Australian Academy of Science (the first female recipient of the Medal since its establishment in 1935).
In 2014 she was awarded the George Szekeres Medal by the Australian Mathematical Society (the first female recipient of the Medal since its establishment in 2002).
In 2014 she was elected an Honorary Member of the London Mathematical Society.
In 2015 she was awarded an honorary doctorate in Mathematics Education by Yazd University, Iran.
In 2015 she was awarded the Mehdi Behzad Prize of the Iranian Mathematical Society, for management in mathematics.
In 2015 she was awarded Honorary Doctor of Science by the University of Saint Andrews, Scotland.
In 2015 she was inducted into both the Western Australian Women's Hall of Fame and the Western Australian Science Hall of Fame.
In 2017 she was awarded Honorary Doctor of Mathematics by the University of Queensland, Australia.
In 2018 she was awarded Honorary Doctor by the University of Primorska, Slovenia.
In 2019 she was awarded the Prime Minister's Prize for Science.
in 2020 she was a Kirk Distinguished Visiting Fellow at the Isaac Newton Institute in Cambridge.
Since 2014, the Women in Mathematics Special Interest Group of the Australian Mathematical Society bestows the Cheryl E. Praeger Travel Awards to female mathematicians.   Since 2017 the Australian Mathematics Trust has awarded the Cheryl Praeger Medal to the best performing female contestants in the Australian Mathematics Competition.
Praeger has also held memberships with the Combinatorial Mathematics Society of Australasia, Institute of Combinatorics and its Applications, Australian Mathematics Trust, American Mathematical Society, and the London Mathematical Society. Her past affiliations have not been limited to academia.
Cheryl Praeger