In her annual audit of government spending released Monday, Bonnie Lysyk reported more than 29,000 "serious occurrences" at provincially licenced and private home services over about a four-year period.
The incidents consist of injuries, alleged abuses, children going missing or potential threats to safety present at the province's daycares.
Lysyk's report specifically referenced one unnamed daycare that hadn't been inspected for more than a year and a half despite a slew of recent safety violations, including leaving knives and toxic cleaning products within reach of kids.
"We think that the focus should be on high-risk daycares," said Lysyk, referring to the need for stepped-up inspections.
She also offered a warning to parents with children attending daycare in Ontario.
"As a parent, I think all of us should do our due diligence in ensuring that the child care operators that we’re entrusting our children to are, in our opinion, good operators," she said.
But Education Minister Liz Sandals said the province has taken steps to ensure children are safer while at daycare.
"We've already hired additional inspectors and we've reduced the backlog of inspections by half," she told reporters on Monday.
The audit also revealed that the province has been issuing licences to facilities before all the proper paperwork and safety requirements have been met. At new daycare centres, Lysyk found that only about 50 per cent had criminal record checks on file for staff who work directly with children.
Sandals said the recently passed Child Care Modernization Act will make mandatory tougher background checks for daycare employees.