The this scope in ColdFusion is equivalent to Java's public <type> <variable> declaration, a.k.a. "public fields". You can read and write these variables from anywhere, which is usually a bad thing (violates OOP encapsulation, is not thread-safe etc.).
This is also true for components (classes) in ColdFusion. However, the Application.cfc is a special case where this linter warning doesn't make any sense since "Application" is a singleton handled by ColdFusion and you cannot encapsulate it's configuration fields that reside in this.
Conclusion: Ignore this message in Application.cfc for all built-in fields, but follow it in every other .cfc file.
(You might want to report this to the linter's maintainer.)