ERA Payer denied for PQRS codes

When we submit claims with pqrs codes, all ERA’s come back marked as ERA payer denied (because the pqrs code we charge 0.01 cents) . So We are unable to run accurate reports and have to manually post the ERA and change the status.
Does any one know a fix for this?
We cannot get anywhere with eclinicalworks.
I imagine there are large practices here that submit pqrs codes and are not having their billers go through each ERA/claim manually?