The actress, who was on a private visit to the pilgrimage site 300km outside Mumbai, said that her trip was spoiled by the media.
The Kal Ho Naa Ho star posted on her Twitter page: "Good morning. Went to Shirdi yesterday and came back with memories of media pushing me instead of the serene face & energy of Sai Baba (sic)."
Zinta, who was awarded an honorary degree from the University of East London last year, expressed her anger in a number of posts on the social networking site.
"In front of God we bare ourselves and look to purify our soul. Instead of feeling uplifted I came back feeling sad and deprived from Shirdi."
Actor Himesh Reshammiya caused controversy when he visited a religious site in Ajmer hidden beneath a burqa.