: Practice of contraception is really important to improved health and quality of life, decrease global maternal mortality, health benefit for maternal and her child, and economic efficiency. Furthermore, women who need a contraception has any reason for choose a contraception method. This study aimed to observe practice of contraception use among rural women in Yogyakarta. A self-reported questionnaire, using cros-sectional study design was employed. Childbearing age and married women was recruited during the Empowerment Program for Family Planning in November 2019, involving rural villages representing poorest area in two districts, Sleman and Bantul. A systematic sampling was selected to choose 564 households with women 21–50 years old or children under five. Women are being asked the current use of contraceptive method and their contraceptive provider. Influencers in contraception use and experiencing of side effects were also being asked including reasons of its use. Data were presented descriptively in number and proportion. Most of participants (37.23 %) used hormone injection, one of fifth (23.94 % and 21.28 %) used intrauterine device and oral pills. Each of participants used other methods of contraception such as sterile method (11.52 %) and condom (6.03 %). Unfortunately, this study showed 41.84 % of participants reported having experience side effect of contraception use regarding weight gain (70.76 %), nausea (28.81 %), and headache (23.73 %). This study showed that practice of contraception among rural women in Yogyakarta was dominantly three main methods such as hormone injection, intrauterine device, and pills methods. On the other hand, participants reported having experience side effect of contraception use regarding weight gain, nausea, and headache. Furthermore, intervention such as counselling and provide an information to increase knowledge and improve awareness about contraception should be doing intensively.