In embodiments of synchronizing linked assets from unsynchronized file folders, files are organized in folders of a file system, where the folders include a synchronized folder and an unsynchronized folder, the synchronized folder having been selected for synchronization of the files contained in the synchronized folder, and the unsynchronized folder containing linked assets. The files contained in the synchronized folder are synchronized with a network-based memory system that stores an instantiation of the files. A synchronization service can determine that a file contained in the synchronized folder references to one or more of the linked assets contained in the unsynchronized folder. The synchronization service can then synchronize a linked asset from the unsynchronized folder automatically based on criteria associated with the file contained in the synchronized folder.