According to the law, the government has direct control of over 400,000 mandiras in Āndhra Pradeś 250,000 mandiras in Karnātaka, and many hundreds of thousands elsewhere. The government can decide how much money to return to the mandiras after it has been collected from them. It could be 30-40%, or it could be much less than that. This does not happen to ANY masjids or churches. In fact, the problem here is that the money kept by the government is used to pay for haj, madrassas, and missionaries. For instance, Andhra Pradesh Chief Minister Y.S. Rajashekar Reddy was notorious for funding christian evangelism activities during his term. This resulted in the shutdown of hundreds of thousands of mandiras over the years, not because they didn’t have “enough money,” but because the money was being stolen in direct violation of the Article 26 of the Constitution of India!
This is what you CAN do to circumvent this to a degree. Give the money to the pūjāri on the ārti plate or in hand, and make it clear that the money is for him and him only. If he puts it in the Hundi box anyway, then stop funding him directly and give him a copy of the statutes and make him understand what happens to the hundi money. If you can’t get the laws repealed in time to save mandiras, then the next thing you can do is to disregard the statutes and have the devotees stand up and defend the mandiras against law enforcement officers attempting to shut down a non-conforming mandira.