And here I thought I was the only one seeing this!  This issue has been
driving me nuts for the past (2) Ubuntu releases (currently running
Hardy).  In my case, it's more basic than problems with ssh.  I have my
home directory in NFS and the desktop seems to "lose" ~/.Xauthority
periodically.  The symptoms are that I'll be working along and all of
sudden nothing will start!  If I try, e.g. xclock at the command line it
tells me "Xlib: connection to :0.0.. refused..".  A simple 'cd ; ls'
seems to get things going again.  Until the next time.

I have Googled endlessly and can find no mention of it other than this
thread of reports.  Both Gutsy and Hardy have done this.  I'm beginning
to suspect the xauth mechanism itself rather than the kernel, but that's
just a guess.  (If xauth had previously done an open/close round on the
file vs. simply calling stat now - for example).

My setup is very simple and only one client machine is actually using
the home directory - it's not dueling overwrites of .Xauthority.

I opened a bug report on it, but the person processing the issue simply
could not grasp the issue and it's never been addressed.

-- 
ssh -X breaks Xauthority on NFS mounted home dir
https://bugs.launchpad.net/bugs/269954
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