For PHP, Aptana Studio. It's built on an Eclipse base, and coming from Java programming, the transition is pretty simple. Sadly, the company that bought them (Appcelerator) seems to have stopped development on it, so it hasn't been updated since 2013. It doesn't support PHP above 5.5. You can run PHP > 5.5, but it detects certain things as errors that really aren't. But, all in all, it's a decent IDE. I've tried others, but keep coming back to this one. It's free. It works well for me.
For .NET, of course, Visual Studio.
Starting to use Visual Code for JavaScript. It's okay. Not quite decided how much I like it.
For all other languages, vim.