The officers rescued thirteen other endangered animals who were living at the menagerie, the Jakarta Globe reported, after the body of a female victim was found there last week.
"There are no clear documents for the protected animals," Dedi Sunardi, an official at the Ministry of Forestry, said. "The animals will be put in a conservation institution."
The liger, the offspring of a male lion and a tigress, was not moved from the villa because it is not an endangered species.
Officials with the Bogor Natural Resources Conservation Center said earlier this week the center would consider putting the animal down, but that it could stay in the menagerie for the time being.
The animal would not be released into the wild, as there are no ligers in Indonesia officials said.
The compound was owned by a Jakarta businessman identified only as "J."
If the owner of the property is also the owner of the endangered animals, which do not have proper permits, he could be charged with multiple crimes.