Mondays Are for Murder - S2-E13
Plot hole: In an effort to keep Glenn's death as quiet as possible, Higgins hires a private pathologist to do an autopsy to see if there were any foreign substances or poisons in his system when he died. A few scenes later it is revealed that Glen was undergoing chemotherapy. How is it possible that the pathologist missed the cancer and the chemo treatment in his investigation? What he found was an excess of antacids.
Plot hole: Cadmus sets a brain-controlled Connor loose in public, without apparently remotely considering the possibility that anything might go wrong. When he regains control all they've got is a few goons onsite armed with regular ammunition - what did they think that would achieve? They know exactly what he's capable of. Either have kryptonite ammo or don't bother having anyone there at all.