- ~/.mozilla/firefox, but: ~/.thunderbird and ~/.pki/nssdb (gonna keep you on your toes!)
- Java defaults to .full.package.name (on top of using .java, .openjfx, and others)
- Fontconfig uses `fc-*` for its tools. Naturally, its config file used to be in ~/.fonts.conf.d before they finally accepted standard directories
- arandr, as the name implies, uses .screenlayout
- The sooner the .net ecosystem decides if it wants to use ~/.dotnet or ~/.mono, the better (humble suggestion: ~/..net)
This really only applies to badly ported Windows software like Unity engine games. There should be no hierarchy, just ~/.{local/share,config,etc.}/$application And nothing stops badly behaved software from deciding to use ~/.$CompanyName or heck I have even seen ~/My\ Documents/$CompanyName
At least with the ~/.whatever system I can just start typing ~/.tool-name, hit tab and it'll show me the thing if it exists. If it's somewhere else I have to look it up.