 <p>I prefer to keep them in a separate config file, located somewhere outside the web server's document root.</p> <p>While this doesn't protect against an attacker subverting my code in such a way that it can be coerced into telling them the password, it does still have an advantage over putting the passwords directly into the code (or any other web-accessible file) in that it eliminates concern over a web server misconfiguration (or bug/exploit) allowing an attacker to download the password-containing file directly.</p>