Wikimedia and MediaWiki are stuck on myISAM for the searchindex table because InnoDB doesn't support virtual tables for fulltext indexes
However users of MediaWiki would generally be better off with InnoDB.
We should introduce a maintenance script for 3rd party users to allow people to switch this table between MyISAM and InnoDB.
Potentially, we can also call this script from the installer/updater and switch people over from the MyISAM default if they want to.