No do NOT hit stop. You will lose position.
Click Feeddhold, and wait until it stops, then click stop.
Then, what you can do, is jog away from the part, and use MDO to send the Z axis to zero. At that point, type in the new value for the Z position in the DRO.
Then, use run from here.
Practice in air with the Run from Here command before actually trying it, so you can get an understanding of how it works.