The Roy A. Johnson Memorial Organ, built in 1999 by Quimby Pipe Organs, Inc., Warrensburg, Missouri, is a three-manual instrument of 46 ranks based on an eclectic design. The concept does not copy any historical style of organ building. The tonal design is a synthesis, resulting in a concept that is distinctly American.

The organ contains 2,692 pipes, of which 653 were retained from the previous instrument and revoiced for the new tonal specification. The visible casework is constructed of poplar painted white and contains polished zinc pipes with the mouths painted gold.

The console was built with drawknobs, coupler rail, toe studs, kick paddles, pedal board, manual key cheeks, and marker plates in the Aeolian-Skinner style in memory of the late Roy Johnson, University of Arizona Professor of Organ, who admired the elegance and feel of their consoles.

The key and stop functions are controlled by a solid state multi-plex relay system. The combination action has 99 levels of memory and features a programmable crescendo and sforzando.