On further investigation, it seems this was caused by the dastardly
iowait kernel bug:

http://bugzilla.kernel.org/show_bug.cgi?id=12309

I'm sure that one is in launchpad somewhere but I couldn't find it.

Trackerd was running in the background right after the upgrade, and
because the kernel can't properly load-balance when IO is occuring,
everything became extremely slow.  The X process (not xournal) was
consuming 100% cpu while drawing.  The result, ironically was nearly the
same symptoms as I saw before with this bug.

Killing trackerd fixed it.

I hope someone fixes this kernel bug soon, it's hitting me from every
side...

** Bug watch added: Linux Kernel Bug Tracker #12309
   http://bugzilla.kernel.org/show_bug.cgi?id=12309

** Changed in: libgnomecanvas (Ubuntu)
       Status: Confirmed => Fix Released

-- 
[regression, intrepid] redraw problems, patches from fedora
https://bugs.launchpad.net/bugs/272316
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