(Note that I'm not a Shiro developer, but here's my stab at answering the
question as a fellow Java developer)
Technically, you could put the shiro.ini file anywhere you want in your
project. But /where/ you put it will affect how you reference it in your
code.
If your JavaFX application is a Maven based project, I would place the
config file in src/main/resources. By putting it there, Maven would place
the file at the root of the JAR/WAR it generates, which would then allow you
to write the code as you originally have it:
Factory<SecurityManager> factory = new
IniSecurityManagerFactory("classpath:shiro.ini");
If it isn't a Maven application, then you could still place it at the root
of your project's source tree. Or you could create a conf/ folder or
somthing, and place it in there. Then the line above might look like this:
Factory<SecurityManager> factory = new
IniSecurityManagerFactory("classpath:conf/shiro.ini");
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