I’ve reported this as a bug for NodeHelper; it looks like it needs the same fix as PartInfo needed. If you want to use NodeHelper before the fix gets released, you can change its part patch file in GameData\NodeHelper\Configs\NM_PartInfo.cfg. Replace line 3 that says:
@PART[*]:NEEDS[!PartInfo]:Final
With this instead:
@PART[*]:HAS[~name[TCAModule*],~name[Deployed*]]:NEEDS[!PartInfo]:FINAL
This is based on the fix to PartInfo, and should resolve an issue it apparently causes with ThrottleControlledAvionics parts as well, though I haven’t tested that part.
Alternatively, because NodeHelper already doesn’t apply its change if you have PartInfo installed, and PartInfo already has the fix released, installing PartInfo would effectively fix the issue with NodeHelper as well.