DE0 with uClinux

This seems to be enough. I would just add a system ID component to help you later if you have an inconsistency between your hardware and software configurations, but anyway the lack of system ID isn't the reason of your problem here.

Try and use signaltap to monitor the reset signal (remember, the reset input on a SOPC builder system is active low, not high) and the locked signal from the altpll_sys.