The 170 animals at the 300-acre farm included goats, sheep, cattle, chickens and pigs, many in need of medical attention.
Zapata pleaded not guilty to all charges in November 2015.
The district attorney's office offered a plea deal to Zapata on Wednesday.
If he pleaded guilty to one count of animal cruelty and one count of unlawful burning, the office would recommend a 30-day jail sentence and a $500 fine, said Andrew Kass, executive assistant district attorney.
Zapata rejected that offer, and another hearing will be scheduled for late February or early March.
ZAPATA WAS ON PROBATION FOR SOMETHING ELSE WHEN THE ANIMALS WERE SEIZED AND HE WAS CHARGED WITH ANIMAL CRUELTY
Zapata remains in Orange County Jail on an unrelated violation of parole.