The Alliance - S1-E8
Plot hole: After Upgrade has successfully removed Rojo's cybernetic parts, the beam rifle she had used in the armoured car heist at the episode's start suddenly appears among them. But when the drone merged with her, she wasn't holding the gun and so it couldn't have been transformed along with her.
Lucky Girl - S1-E10
Plot hole: When Hex revives in the ambulance, the stone to the right of the glowing Reincarnation Charm is the Luck Charm - which Gwen has at that time. Therefore it should be missing from the necklace, but there it is.