I also had the same problem. Flickering screen after clean cm 10.1 install. I was advised to wait to wait several minutes even if screen flickers. I installed cm 10.1 screen started flickering then gone black. I waited 3-4 minutes and then pressed power button to unlock screen... wualllla
)) cm10.1 setup screen. I set up cm 10.1 and it worked normally. Anyway when I restarted phone screen kept flickering again but booted faster. So as I understand I could use cm10.1 without boot animation.... but it loads and works . Anyway I dissappointed in cm10.1 because of this and returned to stock. Hope soon I will get answer why screen flickering aftet cm10.1 install ( looks like you do not have boot screen ... but it boots up ) . Hope soon will get fix.
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