Hi Luis,
if you already know the Moodle interface - no beauties here due to the lack of the CSS files - it could be easy to disable it being logged in as the administrator; otherwise, you could hack the config.php file using $CFG->slasharguments = 0 or, better, to change it on the database - as explained above - to be able to still configure it from the WebUI in the future.
The key point here is that having PATH_INFO not supported is not a wise server configuration choice, regardless the PHP web app you want to deploy.
Receiving an HTTP 404 on a Moodle URL containing a PHP file whose scope is "to serve a file" (described in the PATH_INFO) is the key to understand the lack of the slash arguments support, e.g. in javascript.php/1417038529/lib/javasctipt-static.js the PHP file is designed to serve the PATH_INFO provided after, 1417038529/lib/javasctipt-static.js, where 1417038529 is the timestamp of the last theme cache purge (Moodle update/upgrade or a new theme i.e. it is a mechanism to force browser cache update on each code/theme change) and lib/javasctipt-static.js is the real file Moodle should provide to the browser.
Mine is actually a guess: the OP could explore each request and read the body of the HTTP 404 response where Moodle should write the reason for that error.
HTH,
Matteo