EggBot software has been pretty seamless across the 32/64 transition; it’s a set of python scripts that are not pre-compiled for either 32 or 64. However moving from one version of Inkscape to the other (or worse, having more than one on your system) can potentially cause certain types of misconfiguration. I’d recommend affirmatively deleting the version that you do not plan to use, and then re-installing the Inkscape extensions.