When I run tests against a connected iOS 6 phone, I get the following error in the server log:
[INST STDERR] 2015-04-03 13:45:08.263 instruments[783:46208] WebKit Threading Violation - initial use of WebKit from a secondary thread.
After that, no tests run. I ensured that neither Xcode nor Instruments was running. I get this behavior when running against the node server and against the Appium app (1.3.7). There are a number of other posts on this topic, but they are all closed. One of them purported to offer a solution: be sure "Enable UI Automation" is turned on on the phone. That worked for some people, but not for me.