Urban morphology refers to the physical form of a city that is constantly transformed and updated in the process of urbanization. A valuable source of data on ‘built forms’ is modern remote sensing technology, which provides a variety of products on building footprints and heights at national, continental, and global levels. A large-scale comparison of urban morphologies is important for assessing urban development as well as its influence on urban ecology; however, this has not been well documented so far. This study includes 41 cities in China and 36 in Europe with various city sizes, population densities, and climate features. We applied 3D landscape metrics and principal component analysis (PCA) to compare the spatial aspects of the urban morphology of these cities. We found: (1) measurements of the building height, surface fluctuation, and texture directionality of urban building layouts in China are higher than those of European cities, while the latter are high-density and compact built landscapes; (2) a significant clustering phenomenon for Chinese and European cities revealed by PCA, with the former showing a much more aggregated pattern, indicating a relatively uniform morphology of urban buildings in China; (3) distinctions between cities in China and Europe are suggested by the first principal component, to which building height, surface fluctuation, building complexity, and spatial distance among buildings contribute significantly; and (4) the second principal component (mainly represented by maximum building height, surface area, volume, and shape metrics) can separate large metropolitan cities and provincial capitals from cities with lower urban population, smaller size, and slower economic development. Our results demonstrate the potential of 3D landscape metrics for measuring urban morphology. Together with a temporal analysis, these metrics are useful for quantifying how urban morphology varies in space and time on a large scale, as well as evaluating the process of urbanization.