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Created attachment 284297 [details] New file not appearing This issues is a hard one to file since it has a few different resolutions. Let's start with the functional issue (see attachment): In the PDT workspace as downloaded from https://www.eclipse.org/downloads/packages/ there exists a bug of not-appearing files in a PHP project's source folder in the Project Explorer (not the Script Explorer). This happens only if projects are presented in *Working sets*. For each new file F5 (refresh) needs to be pressed to show the file (or hide when deleting). I guess there some hidden dependency with the package presentation in the project explorer with the JDT. Now the solutions: - Do not use working sets for PHP projects (not a real solution) - The simplest solution is to add JDT with the PDT package and everything works again. Downside: JDT is also present in PDT installation. - Let PDT use Script Explorer by default. Downside: the Script Explorer does not support PHP working sets. - Add a subset of JDT plugins to make it work (i don't know the downsides) org.eclipse.jdt.core org.eclipse.jdt.ui org.eclipse.jdt.core.manipulation org.eclipse.jdt.launching - Fix the underlying bug in the Project Explorer which causes the issue I hope anybody can help this issue reach the right place to let it be fixed.