Bhojshala, also known as Bhojshala Kamaal Moula Mosque, is a disputed ancient structure, the ownership of which is claimed by both Hindus and Muslims.
At present, the Union Government has allowed Hindus to worship there on Tuesdays while Muslims are allowed to continue offering prayers on Fridays.
"Urdu words and symbols of a particular religion were created on marble walls. Its second door too was opened. The government should give explanation on the issue," Narendranand Saraswati told reporters here after visiting Bhojshala.
The ASI officials responsible for this should be suspended and legal action should be taken against them, he said.
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The religious leader also demanded that the Prime Minister Narendra Modi should bring back the idol of Goddess Saraswati which is at a London museum to restore Bhojshala's past glory.
Hindus consider Bhojshala to be a temple of Saraswati while the Muslims consider it a prayer place.
Efforts to contact ASI did not fructify.