Will starter from an automatic 2000 Honda civic LX fit on a automatic 2000 Honda civic HX?

The lx is a 5 gear transmission and the hx is a CVT transmission. With the starter fit? Mine went out on my hx

Nope

Autozone has different starters for automatics than manuals, so I doubt it. FYI, no Civic in 2000 had a CVT transmission, but I'm assuming you meant an automatic.