Need more information regarding RAW JPEG pairs

I understand the importing of RAW+JPEG pair options. What I am having difficulty finding in any forum or user manual is the workflow using such pairs after the import.
If I import a R+J pair with RAW as original, there is an "R" icon in the viewer on that photo. Is the image displayed (version 1) Aperture's rendering of the RAW file? Or is it the JPEG that goes along with it? If I wanted to compare the JPEG to the RAW, how would I do that? If I created a new version from the original and then compared version 1 and version 2, what would I be looking at?

My first question is why are you using a Raw&JPG pair workflow? In my experience it is very rarely needed and adds a lot of complexity to the setup.
Now to answer your questions:
The image displayed in the viewer is always a full resolution interpretation of the current master. If the raw file is the master then the image is based on it. If the JPG is master then the image in the viewer is based on it.
There is no direct way to compare one master to the other master. Only one master can be viewed at a time. However versions made off of one of the masters will always be made off that master.
So if the Raw is the current master and you create a version from it that version is based on the Raw master. Now if you select the JPG to be current master a version is made off of it and the other version you created is still based on the  Raw master.
You can prove this to yourself by looking at the filename of each. When you select the version made from the Raw the filename extension will show the Raw extension for your camera. When you select the JPG the filename extension will end in jpg.
So now on to how to compare the images side by side:
For whichever type is the current master select it and do a Photos->New Version from Master. Remember a version made from a master, before any adjustments are made to the version, will be identical to the master.
Now switch masters. A version is created from this master and again as no adjustments were applied to it will look exactly  like the master.
These two images are then the Raw and the JPG side-by-side.

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