We present measurements of photoemission quantum efficiency (QE) for copper photocathodes heated and cleaned by low energy argon and hydrogen ion plasma. The QE and surface roughness parameters were measured before and after processing and surface chemical composition was tracked in-situ with x-ray photoelectron spectroscopy (XPS). Thermal annealing at 230 C was sufficient to improve the QE by 3-4 orders of magnitude, depending on the initial QE. Exposure to residual gas slowly reduced the QE but it was easily restored by argon ion cleaning for a few minutes. XPS showed that the annealing or ion bombardment removed surface water and hydrocarbons