Simply put you upgrade the Spectral Analyzer it bugs out the whole workbench and you can pick it up or use the bench anymore.
#Spectral Upgrade bugged
keen leaf
calm copper
Yes I got the same problem... Save and restore your game and a duplicate Spectral Analyzer will be pickable!
solid coral
all tools are pickable after upgrade with single left click.. bugging is with double left click
P.S. you was wright.. analyzer is bugged all the time.. 
alpine gyro
Just tested twice - unable to pick up the upgraded spectral detector from the workbench with a single click. Grinding away the bench does not help. Double clicking on the tool bugs everything out.