The quantitative comparison of essential oils extracted from various parts of Cupressus funebris and Juniperus chinensis was studied. With increased height, the content of essential oils from branches decreased, while the content of essential oils from leaves increased for both species. A maximum amount of essential oils were found in the west and a minimum in the east of branches and leaves for the two species. Moreover, the content of essential oils in trees with a knot was higher than in those without a knot. The order of essential oil content was as follows: leaf > fine root > coarse root > bark > bough > branch > trunk in C. funebris, and leaf > fine root > bark > coarse root > bough > trunk > branch in J. chinensis. The essential oils extracted from various parts of C. funebris and J. chinensis were analyzed by gas chromatography-mass spectrometry. A total of 67, 33, 69, 65, and 69 components were identified from the roots, trunks, barks, branches, and leaves of C. funebris, respectively. A total of 72, 46, 79, 55, and 82 components were identified from the roots, trunk, bark, branches, and leaves of J. chinensis, respectively.