From Chapter 4:
It is somewhat singular that the Puritans, who denounced most amusements and pleasures, and who frowned upon most of the occupations or diversions that make for gaiety and the enjoyment of life, did not, as Puritans, denounce the use of tobacco. One or two of their writers abused it roundly; but these were not representative of Puritan feeling on the subject. The explanation doubtless is that the practice of smoking was so very general and so much a matter of course among men of all ranks and of all opinions, that the mouths of Puritans were closed, so to speak, by their own pipes. A precisian, however, could take his tobacco with a difference. The seventeenth-century diarist, Abraham de la Pryme, says that he had heard of a Presbyterian minister who was so precise that "he would not as much as take a pipe of tobacco before that he had first sayed grace over it." George Wither, one of the most noteworthy of the poets who took the side of the Parliament, was confined in Newgate after the Restoration, and found comfort in his pipe.

From Chapter 5:
Among the many medicinal virtues attributed to tobacco was its supposed value as a preservative from contagion at times of plague. Hearne, the antiquary, writing early in 1721, said that he had been told that in the Great Plague of London of 1665 none of those who kept tobacconists' shops suffered from it, and this belief no doubt enhanced the medical reputation of the weed. I have also seen it stated that during the cholera epidemics of 1831, 1849, and 1866 not one London tobacconist died from that disease; but good authority for the statement seems to be lacking. Hutton, in his "History of Derby," says that when that town was visited by the plague in 1665, that at the "Headless-cross ... the market-people, having their mouths primed with tobacco as a preservative, brought their provisions.... It was observed, that this cruel affliction never attempted the premises of a tobacconist, a tanner or a shoemaker." Whatever ground there may have been for the belief in the prophylactic effect of smoking, there can be no doubt that in the seventeenth century it was firmly held. Howell in one of his "Familiar Letters" dated January 1, 1646, says that the smoke of tobacco is "one of the wholesomest sents that is against all contagious airs, for it overmasters all other smells, as King James they say found true, when being once a hunting, a showr of rain drave him into a Pigsty for shelter, wher he caus'd a pipe full to Be taken of purpose." But here Mr. Howell is certainly drawing the long-bow. One cannot imagine the author of the "Counterblaste" countenancing the use of tobacco under any circumstances.