vscode diagnosis problems issue after clean java language server workspace problems

Environment

• Operating System: win11 & macOS 15
• JDK version: JDK 17
• Language Support for Java(TM) by Red Hat :v1.4x.x (v.1.40-v.1.42 also)

While developing Java in VS Code, I occasionally run into resolution issues. I used to resolve them by executing the "Clean Java Language Server Workspace" command. However, I've recently observed that after using this command and restarting VS Code, the diagnostics (errors, warnings, infos) count always resets to 0.

Furthermore, diagnostics appear to only analyze files that are currently open in the editor. As a result, if a change breaks a reference in another file that isn’t opened, no error is shown—unless the affected file is explicitly opened.

The only workaround I’ve found so far is to clone the project into a new directory. Cloning into the same original path doesn't solve the issue, and clearing cache has no effect either.

Start by reproducing the issue in VS Code on the reported Windows and macOS environments, using the "Clean Java Language Server Workspace" command on a Java project. Check whether diagnostics disappear after restarting and whether unopened files are analyzed; done means diagnostics remain available and broken references are reported without opening each affected file.