Indonesia possesses the third largest tropical forests coverage following Brazilian Amazon and Congo Basin regions. This country, however, suffered from the highest deforestation rate surpassing deforestation in the Brazilian Amazon in 2012. National capacity for forest change assessment and monitoring has been well-established in Indonesia and the availability of national forest inventory data could largely assist the country to report their forest carbon stocks and change over more than two decades. This work focuses for refining forest cover change mapping and deforestation estimate at national scale applying over 10,000 scenes of Landsat scenes, acquired in 1990, 1996, 2000, 2003, 2006, 2009, 2011 and 2012. Pre-processing of the data includes, geometric corrections and image mosaicking. The classification of mosaic Landsat data used multi-stage visual observation approaches, verified using ground observations and comparison with other published materials. There are 23 land cover classes identified from land cover data, presenting spatial information of forests, agriculture, plantations, non-vegetated lands and other land use categories. We estimated the magnitude of forest cover change and assessed drivers of forest cover change over time. Forest change trajectories analysis was also conducted to observe dynamics of forest cover across time. This study found that careful interpretations of satellite data can provide reliable information on forest cover and change. Deforestation trend in Indonesia was lower in 2000-2012 compared to 1990-2000 periods. We also found that over 50% of forests loss in 1990 remains unproductive in 2012. Major drivers of forest conversion in Indonesia range from shrubs/open land, subsistence agriculture, oil palm expansion, plantation forest and mining. The results were compared with other available datasets and we obtained that the MOF data yields reliable estimate of deforestation.