When comparing FileZilla vs SSH of Windows' Linux subsystem, the Slant community recommends SSH of Windows' Linux subsystem for most people. In the question“What are the best SSH clients for Windows?” SSH of Windows' Linux subsystem is ranked 5th while FileZilla is ranked 16th. The most important reason people chose SSH of Windows' Linux subsystem is:
All you have to do is go to the Microsoft store, choose a Linux distro you like, and install the client for free.
Specs
Ranked in these QuestionsQuestion Ranking
Pros
Pro Secure FTP support (FTPS/SFTP)
Supports FTP, FTPS (SSL) and SFTP (SSH).
Pro Free and open source
FileZilla is free open-source software distributed under the terms of the GNU General Public License free of charge. Basically this means that everyone, including corporate entities, can use FileZilla, including but not limited to private, educational and commercial use.
Pro Offers Server Mode
Can be used as an FTP server also, allowing easy file sharing.
Pro Cross-platform
In addition to Windows, FileZilla client is available for Unix, OSX and Linux.
Pro Suppots FTP and FTPS
FileZilla Server is a server that supports FTP and FTP over SSL/TLS which provides secure encrypted connections to the server.
Pro Kind of de-facto standard
If you're troubleshooting things, everybody will first try if it works with File-Zilla.
Pro It's extremely easy to get running
All you have to do is go to the Microsoft store, choose a Linux distro you like, and install the client for free.
Pro Based on OpenSSH
OpenSSH is the reference for all ssh clients.
Pro Excellent way for Windows users to learn Linux
It is much easier and more convenient than dealing with a dual boot Linux installation.
Pro Full Linux shell
Uses all relevant Linux ssh commands as normal.
Cons
Con Installs junk software on your computer
The installer will install adware by default.
Con Graphical problems
For example running Midnight commander (MC) makes terminal blinking.
Con Crontab and other background jobs don't work properly
Crontab only runs on ROOT, and it needs Windows to stay open. If you close it, you will kill the crontab. Some background jobs don't run on Windows WSL.
Con Command line editing does not work properly
Overrides chars instead of inserting them... depending on position and moon phase?
Con Does not install on PC virtual machines
Con Forces window to a certain size
Any other SSH client will render the remote server at whatever size the local client window is. The built-in SSH client on Windows, however, forces you to use a standard size, and it's small enough to cause problems.
Con Windows' SSH key agent service is broken
Attempting to use the built-in ssh-agent provided with Windows will cause errors and authentication failures due to an incompatibility between Windows' ssh-agent and OpenSSH on remote systems.
Con Cut & paste works like the Windows prompt
Older versions of the Windows Command Prompt select text in a rectangular region of the console, rather than starting at a character position and selecting forward or backward along with the logical flow of text. To copy a sentence, for example, would require that you select all content in the two lines that contain the sentence, then trim what isn't needed, rather than just selecting the sentence. In later versions of Windows 10, this may not be an issue, as the cut-and-paste behavior has changed.