Immediate suspicion is that R23/R29 network is wrong.
Quick calculation shows that it should regulate VCC12V0 to about 6.6V, but this is not 3.3V as you have found.
Probably check all your rails (including PVCC), scope out ITH/RUN pin and check switching frequency assumptions. Post pic of PCB, layout, etc.. Does the 3.3V hold up under load? Is it regulating correctly?