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I thought you were asking about lftp and other non kindle specific apps, and in fact, you wrote that you had already installed kterm. If it doesn't work, check the README and open and closed issues on github. If none of those address your problem, open a new issue on github.
I've never used or even installed kterm, it's just always seemed much easier to just ssh in if I need to do something.
/usr/bin and /usr/local/bin are traditional locations for command line tools. Sinct you wrote that you are familiar with linux, I assumed that you knew that.
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