with the upgrade of the EXR workflow inside AE it is easyer than ever to do 3d compositing inside AE. But there is a lack of native tools to do so.
First of all the camera blur is slow, doesn't handle the aliased problems in the zdepth very well and doesn't produce a convincing photorealist blur...
Next the pixel motion blur was a great addition when it was promoted a few years ago but it would have been great to be able to feed it with a motion vector pass coming from the 3d render to be able to produce a nice motion blur.
There is no native relighting workflow inside AE you can't use your normal pass or your point position pass inside AE to do relighting or help merge your 3d passes and live footages.
For all those problems there are 3rd party solutions but all of the solutions 3rd parties came with are becoming old, are not well maintained and a bit clunky. And after effects and its users deserve better than those. We could use an other compositing package for those tasks but after effects have other capabilities that make it a for more flexible tool than its competitors