File the 568 for all years subsequent to the original.  I some cases FTB may abate the penalties https://www.ftb.ca.gov/pay/penalties-and-interest/help-with-penalties-and-fees.html and the FTB resource for what is reasonable cause. 

There is no federal filing, other than the 1120S.

I agree with @qbteachmt that the election to put the real property into a corporation was very likely not the wisest choice, but the client selected the attorney and paid that person to set this up. It is not our job to ...