Background Antenatal care (ANC) visits, institutional delivery, and postnatal care (PNC) visits are vital for improved health of mothers and newborns. Access of these routine maternal and newborn health (MNH) visits have increased in the last few decades in Nepal; however, little is known on the effective uptake (including timely, skilled, frequent, and adequate care) of essential MNH interventions during those visits. This study examined the patterns of effective coverage (EC) of routine MNH visits and their determinants in Nepal. Methods A secondary analysis was conducted taking data from the Nepal Demographic and Health Survey (NDHS) 2016. The study included 1,978 women aged 15–49 years who had a live birth in the two years preceding the survey. Three outcome variables were EC of i) at least 4ANC visits, ii) institutional delivery, and iii) first PNC visit for newborns and mothers within 48 hours of childbirth. The independent variables included several structural, intermediary and health system factors. Binomial logistic regression analysis was conducted, and the magnitude of EC was reported as odds ratio (OR) with 95% confidence intervals (CIs). The statistical significance level was set at p<0.05 (two-tailed).Results The effective coverage of 4ANC visits, institutional delivery, and PNC visit was 52%, 33% and 23%, respectively. Women with advantaged ethnicity were more likely and women living in province six, who speak the Maithili language, who had high birth order (≥4) were less likely to have good EC of MNH visits compared to their reference categories. Women who had access to a bank account, completed at least 4ANC visits or had caesarian-section delivery were more likely to have good EC of MNH visits. Women who perceived problem if not seen by female providers had poor EC of MNH visits compared to their reference counterpart. Conclusions Women with ethnic and social disadvantages and remote areas had poor EC of MNH visits. Continuous monitoring of EC of MNH visits is vital, especially among women with markers of disadvantages. Policies and programs should focus on increasing the uptake of essential MNH interventions, especially among women with social disadvantages and those living in remote areas.