A method of forming improved spacer isolation in deep trench including recessing a node dielectric, a first conductive layer, and a second conductive layer each deposited within a deep trench formed in a silicon-on-insulator (SOI) substrate, to a level below a buried oxide layer of the SOI substrate, and creating an opening having a bottom surface in the deep trench. Further including depositing a spacer along a sidewall of the deep trench and the bottom surface of the opening, and removing the spacer from the bottom surface of the opening. Performing at least one of an ion implantation and an ion bombardment in one direction at an angle into an upper portion of the spacer. Removing the upper portion of the spacer from the sidewall of the deep trench. Depositing a third conductive layer within the opening.