1 For patients not covered by insurance, the total cost of a Hepatitis B vaccination sometimes includes a consultation fee, and usually includes shot administration fees and the cost of the three required doses of the vaccine for a total of about $120 to $370 or more. Protection begins four to six weeks after the first shot. 2  The CDC has an information sheet about the Hepatitis A vaccine. 3  The Hepatitis B and combined Hepatitis A/B vaccines usually are given in a series of three shots, with the second shot a month after the first, and the third shot six months after the first.