It sounds like you need to first understand using the command line to run programs, then how to apply that to Spine.
Trying opening a command line and running Spine from there. From the command line enter the path to
Spine.com, press enter: the Spine UI should appear and you'll see the Spine log at the command line.
Next, close that and run Spine again, this time like:
Of course replace my paths with your real paths. That is the simplest command, it dumps some information about the project. You can do the same with the "short" parameter
-i instead of `
C:\path\to\Spine.com -i C:\path\to\project.spine
Short parameters always have a single dash and are a single character, while the long parameters are two dashes and can be a whole word. Short parameter are convenient but make the command harder to understand.
Once you can do that, running a JSON export is:
Once you can do that we can help more with creating folders for your skeletons.