IMO this thing is way overblown. What applications these days do not simply use primary and clipboard selections in a consistent way? (FTR I like them separate very much as I would hate to have my clipboard contents change by simply selecting some text.) Middle click is not a shortcut for Ctrl+V!
Ctrl-C is indeed used to send SIGINT to the foreground processes in terminals and thus terminal emulators, and the established alternative for terminal emulators is to replace Ctrl-C/V copy/paste with Ctrl+Shift+C/V (I think that's how even cmd.exe works these days). Copying and sending a SIGINT would hardly be a useful default.