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A research using pre-experimental method was conducted to equip research skills and improve students- logical thinking in the Cryptogamae botanical practicum. The initial development of the practicum program was based on a preliminary study at one of state university in Bandung, West Java. This study involved 38 second semester biology students. The study was conducted from February to April 2019. Data were collected through several instruments in the form of: tasks and rubrics for reviewing articles, proposal outlines, pre-proposals, final proposals, and test of logical thinking (TOLT). Research skills used at the scaffolded research level in facets of research which consist of: embark and clarify, find and generate, evaluate and reflect, organize and manage, analyze and synthesize, communicate and apply. Data were analyzed qualitatively. The results show that the Cryptogamae botany practicum program could improve students- medium research skills and logical thinking. In addition, it was also found that student who have a formal score of TOLT category tend to increase their research skills higher compared to those of the transitional and concrete score categories.