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Software for remote desktop with phone confirmation to use on untrusted machines
(discuss.tchncs.de)
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I'm not saying this to be smug, everything you listed here is things ssh can do if configured to do so... 2FA can be configured in various ways via PAM (namely yubikey being the superior method, but the possibilities are limitless). Banning non interactive shells can be done with something along the lines of:
Rate limiting is achievable via iptables/nftables.