InnoDB vs MyISAM discrepancy with MySQL

MySQL Storage Engine

The Default storage engine for MySQL is MyISAM. This storage engine does not support Foreign Key constraints. This may cause data corruption and is not recommended for use.

You can set the default Storage Engine for MySQL by passing the '--default-storage-engine=InnoDB' option when starting mysql.

For more information see: http://dev.mysql.com/doc/refman/4.1/en/storage-engines.html.

Can we possibly fix it via following these instructions?

• note : seems as the upgrade process is triggered twice under a specific circumstance - please investigate