Using MySQL With just InnoDB storage engine
Actually, all the tables, but one use InnoDB storage engine. The one that uses myisam engine is table &quot;searchindex&quot;.
When you check for index type:
mysql&gt; show index from searchindex where Index_type=&quot;FULLTEXT&quot; \G

you get that the &quot;searchindex&quot; table indeed uses FULLTEXT.
I would say that Craft uses some specific fulltext searches specific to myisam engine, therefore not using innodb.
You can change the engine of the &quot;searchindex&quot; table (and see what brakes) with:
mysql&gt; alter table searchindex engine=&quot;InnoDB&quot;;

and revert with:
alter table searchindex engine=&quot;MyISAM&quot;;