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What happens when you RAM preview the original "cartooned" AE comp inside of AE?
Please don't take this the wrong way, but, you do know how to render out of After Effects, right? What I mean by this is that I assume you know that what your composition settings are don't necessarily reflect what your render settings or your output module are. You might be getting the aborted render because, for instance, you're rendering a 1920x1080, PAR 1.0 comp to one of the DV output modules--which won't work because DV has to be 720x480, PAR .9 (NTSC, that is). Unless you set the stretch settings in the output module, you'll like get a canceled render because you can't export to the DV codec with 1920x1080 SAR. You have to customize an output module to handle that kind of render. If you do know this, then ignore me :)
For the non-appearing effects, there is (I believe) a setting in the render settings (accessed once you send something to the Render Queue) to either render effects or not. Make sure this is turned on. If you see the effects when you RAM preview, as Jeff suggested, this is the likely culprit. I'm going from memory on this one--not in front of AE right now--but I seem to remember it being there.
Finally, depending on the comp that you're trying to DL to PPro, you might just be force-feeding way too much data for the inter-program bridge to handle. This will vary depending on source footage, effects, and so on in the AE comp. Getting a good render out of AE may be your only recourse.