as his parliamentary assistant.
Both are scheduled to appear on Monday. They deny the allegations.
The scandal - dubbed PenelopeGate - began in 2017, when Mr Fillon seemed favourite to win the presidency.
The centre-right candidate's ratings plummeted after the allegations. Centrist Emmanuel Macron eventually won the election against far-right candidate Marine Le Pen.
Fillon payment inquiry: What you need to know
Mr Fillon could face up to 10 years in prison if convicted. The trial is scheduled to run until 11 March.
Ahead of the 2017 presidential election, he won the centre-right Republican party's presidential primary, and in January 2017 was the clear frontrunner in the polls.
But his bid for the top job fell apart later that month.
Le Canard Enchaîné, a satirical magazine, alleged that Penelope Fillon - formally employed as his parliamentary assistant for about six years in the 1990s and 2000s - never actually did her job. What's more, she was paid €831,400 (£697,000; $900,000) in the role.
Mr Fillon denied the allegations. He said his opponents were trying to sabotage his campaign through his wife, and vowed to press on with the election.
As the scandal grew he apologised "profusely" for employing family members, saying that though legal the practice had caused "mistrust".
But his poll ratings dropped sharply. He came third in the first round of voting, missing out on the second-round run off.
What is PenelopeGate?
Le Canard Enchaîné published numerous allegations against Mr Fillon and his family.
According to the magazine, Mrs Fillon made €100,000 writing just a handful of articles for a literary publication La Revue des Deux Mondes. The magazine is owned by a billionaire friend of the family, Marc Ladreit de Lacharrière.
From 2002-2007, Mrs Fillon worked for her husband's successor as an MP, Marc Joulaud. He has also been placed under formal investigation.
And during a brief stint working for her husband between 2012-2013, Mrs Fillon allegedly did not have a work email or parliamentary pass.
Two of their children have also been caught up in the scandal.
Marie and Charles Fillon were both paid for legal work by their father's office - yet Le Canard Enchaîné reported that neither were qualified lawyers at the time.