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[r34 jul 16] Very likely not reproducible. I was running with the projects module disabled, and found that I had no mounts any more. So I copied a bunch of files from $userdir/system/Projects/Default/Mount/ to $userdir/system/Mount/ from a command shell. A couple of minutes later, I clicked Filesystems in the running IDE and chose Customize. The IDE then deadlocked. From the dump, it looks to me like CommandLineVcsFileSystem (in FS API) should not be statically initializing VcsCommandNode (in Nodes API). So maybe vcsadvanced component actually, I am not sure.
Created attachment 6871 [details] Thread dump
The problem was already reported in issue #21316. The fix was postponed into 4.0 due to it's complexity. It was a bad idea to store commands in Nodes structure, because it cause synchronization problems like this. We need to replace the Nodes with some other structure which will not synchronize on org.openide.util.Mutex. It can be solved together with the new VCS APIs. *** This issue has been marked as a duplicate of 21316 ***
If you don't agree Jesse, reopen with further explanation ...