I just spent 4 hours trying to figure out why Piwik can’t see the modules that get_loaded_extensions reports are there. This is the kind of error that should be in the installation docs in huge red letters. You guys almost lost a Windows devotee here!
I’ve got exactly the same problem (using windows).
I’m using apache http server 2.4.6 and php 5.5.4.
My configuration should be okay since <?php phpinfo(); ?> in my index.php works.
I removed the comment signs in my php.ini so the extensions should be loaded:
…
extension=php_mysqli.dll
…
extension=php_pdo_mysql.dll
I’ve tested it with php 5.4.20 in combination with apache hhtp server 2.2 too - same result…
Okay, problem solved…
According to the error.log php could not find the extensions - setting an absolute path (extension_dir) instead of the relative one (“res”) solved the problem. So it wasn’t a piwik problem, but a php problem (my first impression of php is not very good: outdated documentation etc… very annoying, it took me 5 hours to solve this…)