In October 1666, when proceedings against him were depending, with a bill against atheism and profaneness, he was at Chatsworth, and appeared extremely disturbed at the news of it, fearing the messengers would come for him, and the earl of Devonshire would deliver him up, the two houses of Parliament commit him to the bishops, and they decree him a heretic. This terror upon his spirits greatly disturbed him. He often confessed to those about him, that he meant no harm, was no obstinate man, and was ready to make any satisfaction; for his prevailing principle and resolution was, to suffer for no cause whatever. Under these apprehensions of danger, he drew up, in 1680, an historical naration of heresy, and the punishments thereof, endeavouring to prove that there was no authority to determine heresy, or to punish it, when he wrote the Leviathan. Under the same fears he framed an apology for himself and his writings; observing, that the exceptionable things in his Leviathan were not his opinions, so much as his suppositions, humbly submited to those who had the ecclesiastical power, and never since dogmatically maintained by him either in writing or discourse; and it is much to be suspected, as Dr. Kennet observes, that upon this occasion, he began to make a more open shew of religion and church communion. He now frequented the chapel, joined in the service, and was generally a partaker of the sacrament; and when any strangers used to call in question his belief, he always appealed to his conformity in divine service, and referred them to the chaplain for a testimony of it. Others thought it a meer compliance with the orders of the family; and observed, he never went to any parish church, and even in the chapel upon Sundays he went out after prayers, and would not condescend to hear the sermon, and when any friend asked the reason of it, he gave no other answer but this, that preachers could tell him nothing but what he knew. He did not conceal his hatred to the clergy; but it was visible his aversion proceeded from the dread of their civil power and interest. He had often a jealousy that the bishops would burn him; and of all the bench he was most afraid of Dr. Seth Ward, bishop of Sarum, because he had most offended him. Dr. Kennet further observes, that his whole life was governed by his fears.