The joint investigation by the Texas Tribune news website and The Center for Investigative Reporting came on the same day that US President Donald Trump reversed a tough policy and ordered an end to separation of migrant children from their parents on the US border.
His backtracking followed domestic and international outrage at the policy.
These are children who arrived in the US without parents, or who were separated from parents by immigration authorities.
Since 2014, 13 shelter operators have faced serious complaints, according to the Tribune report, but only two have lost their contracts with ORR.
Among the offender companies identified was Southwest Key Programs of Texas.
It operates the converted Walmart supermarket, called Casa Padre, which has been featured by much of the US media in the last few days as holding about 1,500 immigrant children under the Trump administration's "zero tolerance" policy.
In a statement, the company said deficiencies were found in less than one percent of the standards for which it is evaluated.
"We take each of the deficiencies seriously by self-reporting to invite external investigations, as well as performing our own internal investigations," the company said.
"When called for, staff have been terminated or retrained as we continue to strive for excellence in the services we provide to the children entrusted to our care." Another Texas-based company, International Educational Services, was one of the two shelter operators whose ORR contracts were not renewed.
It had been cited with more than 100 deficiencies at nine facilities, including "inappropriate sexual contact between staff and children, harsh punishment and lapses in medical care," the report said.
The ORR did not respond to a request for comment.
(This story has not been edited by Devdiscourse staff and is auto-generated from a syndicated feed.)