As an aside only the original Kindle, K2, DX and DXG should be using mobi. Use AZW3.
Calibre has it's own trash system because system trash can't restore metadata. As @JimmXinu writes, there are settings.
Also the Calibre editor, viewer and conversions mostly work best with epub, so they should be kept.
I've about 6500+ titles, mostly PD. A few decent videos or ISOs take more space.
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