An update: we tried upgrading the graphics card in the affected
workstation from a Quadro FX 380 to a Quadro 600. This worked around the
performance problems. With the new card, glmark2 runs smoothly within
Unity, and Chrome runs well; it claims 60 FPS with the WebGL Aquarium
demo running nearly full-screen, though it does appear to drop frames
occasionally.

The Quadro FX 380 is admittedly a fairly old card, and I don't think
it's worth investing a lot of time making things work flawlessly on it.
However, I do believe the performance issues are indicative of problems
with Unity+Compiz on older or slower graphics cards in general, and they
should continue to be investigated.

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https://bugs.launchpad.net/bugs/988079

Title:
  Much slower OpenGL frame rates with unityshell loaded, than plain
  compiz

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