Do you really need the space?
The DB size won't change (much) because Calibre is a Hybrid of a SQL db and the OS file system. so performance won't improve significantly.
Search:
Code:
formats:EPUB and formats:mobi
To see how many have your
issue
FWIW I Keep track of the original format in a custom column. I don't clean out that.
You can select ALL (ABOVE SEARCH results
only showing): Right-click: Remove books: OF A SPECIFIC FORMAT: Mobi
This is not un-doable