I use Windows 8 x64 and last eclipse: eclipse-java-juno-SR1.
At second monitor I move console and some android tools (logcat, devices). All worked ok. But I do not need see second monitor all time. And I switch off this monitor (by win + P). On next start I see windows from second monitor at primary monitor. Close. Open. And now see default perspective. Own perspectives, that I saved disappeared. And this repeat all time, if I disable second monitor.
Before I use eclipse-java-indigo-SR1 and do not have any problem.
Don’t find solution. Now back to indigo (3.7.1).