You can also just edit the course settings and switch to another course format. Switching formats will not lose data.
You could try the Topics format with the "one section per page" layout and it might even be enough so that you don't need the Collapsed topics format at all.
Further to Dan's accurate comments about innodb working much better in general, it is actually required if you want to use Moodle's web services (for the Mobile app, for example), and possibly for more features in future.
So we really really really recommend you find a way to get off MyISAM as soon as you can.
Could be time for a new web host. PHP 5.2 is no longer supported by the PHP team either.
Switch to Moodle Adminer ... it's much much better (and supported).