Re: PuTTY's days are numbered
on windows I prefer to use Cygwin's ssh implementation.
on POSIX systems, I just use the built-in ssh.
Seriously, PuTTY could have wrapped the existing ssh program with a simple GUI and probably would have avoided most of these problems. If it were to ship with a portable version of ssh, and maybe a handful of patch files to put the magic into it more easily than dealing with Windows' pathetic handling of console applications and stdin/stdout/stderr re-direction, then a lot of these problems wouldn't be problems any more.
Just a thought - maybe PuTTY could get a re-write to do it this way... [then you just need to maintain the GUI and keep the back-end up to date with all of the relevant patches]