First check the camera that you are viewing the C4D scene through (the active camera with the white checkbox in the object manager). Its also good practice to turn off or delete cameras you won’t be using so the wrong one doesn’t get exported.
The render doesn’t really need the external compositing tag, that’s more for when you bring the data into AE. (assuming you are rendering out of C4D and not letting AE render the C4D stuff for you.)
You do need to bring the exported data from C4D into AE so that you have a camera that is the same (and the position of the objects). But the renders are just frames or movies that are “flat” and fit to your comp window in AE.
Make sure you comp size matches your render size in C4D and your frame rate in both C4D and AE – 29.97 is not “close enough” to 30. Make sure your aspect ratios match too.
Are you using any motion blur in either C4D or AE? If so, try a short render without and see if that helps.
Make sure to turn off any cameras you had in AE and only use the camera that came in from C4D.
Make sure you are in camera view in AE and not one of the other views available (front, Axon, Iso)
Failing all that, if you can trim the C4D project down to just the camera and the objects that aren’t lining up and trim the AE project down to the same, you can upload it here and we can take a look.