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Linux Directory Structure - FHS
(lemm.ee)
From Wikipedia, the free encyclopedia
Linux is a family of open source Unix-like operating systems based on the Linux kernel, an operating system kernel first released on September 17, 1991 by Linus Torvalds. Linux is typically packaged in a Linux distribution (or distro for short).
Distributions include the Linux kernel and supporting system software and libraries, many of which are provided by the GNU Project. Many Linux distributions use the word "Linux" in their name, but the Free Software Foundation uses the name GNU/Linux to emphasize the importance of GNU software, causing some controversy.
Community icon by Alpár-Etele Méder, licensed under CC BY 3.0
The logic was just that when UNIX was originally evolving, they ran out of disk space on their PDP-11 and had to start moving less-essential binaries to a different disk. That's why it's "/usr/" which was originally for user data but that disk happened to have free space.
Any other explanation is just retcon. Some distros try to simplify things.