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The purpose of the research was to determine the effect of tuber size and different growing media on growth and yield of shallot. This research was conducted in the experimental garden of Agriculture Faculty UPN "Veteran” Yogyakarta in April until June 2019. A Completely Randomized Design was used for this research with factorial arrangement. The first factor is tuber size consist of small (1,0 -2,5 g), medium (2,6-3,5 g), and large (3,6-4,6 g). The second factor is growing media consist of soil, soil + husk charcoal, soil + baglog mushroom waste, soil + husk charcoal + baglog mushroom waste. The result showed that there was no interaction between the tuber size with different planting media on growth and yield of shallot. The large and medium tuber size grew better than small tuber on leaf number, tillers number, tuber number, fresh weight, air dry weight, and tuber diameter. The media of soil + husk charcoal and soil + husk charcoal + baglog mushroom waste provided better result on tillers number, fresh weight, and tuber diameter.