So if a civilization were to completely mask itself in the EM spectrum, the only way to detect them would be to look for gravitational distortions assuming those can't be masked. A civilization might do this either to hide from others or because the maximum efficiency of their energy extraction system would occur when their waste heat matched the background ration. So a really advanced (and paranoid or efficient) civilization would be indistinguishable from dark matter.
This brings up another interesting hypothesis: dark matter is actually the computronium of all of the alien civilizations in the universe that have achieved a technological singularity. Unfortunately, this hypothesis can't be tested until humanity gets to the same level.