The output looks fine and if you still have MCE Keyboard buttons mapped to menu/exit the output is expected - ir-keytable shows you that the MCE Keyboard protocol mce_kbd is supported but not enabled.
The MCE Remote (rc-6 protocol) usually has "Back" and "(DVD) Menu" buttons that map to exit/back and (context)menu in kodi. Just use these and stay away from MCE keyboard in the harmony configuration software.
BTW you can find more info on the wiki Infra-Red Remotes - LibreELEC.wiki and if you search the forum for mce_kbd you'll find info how to get MCE keyboard working - but that's rather tedious and not really needed in your case, MCE Remote should have everything you need/want and will work OOTB.
so long,
Hias