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As I said FCP 7 re-wraps the native AVC intra files as pro res, no need to transcode and what you get one the files are re-wrapped as .MOV is pro res HQ. You can see in the sequence settings that is what FCP then see's. You will also see in the bin that the file originated from AVC intra but if you drop a clip onto the sequence timeline it sets it as pro res HQ.
At the end of the day what does it matter?
I shoot AVC intra 100 it re-wraps into FCP as a MOV file and then when it goes to the timeline it appears as pro res HQ, I then export my master and it is a quicktime file in pro res HQ.
Its all about workflows and as far as FCP is concerned it all works and I don't need to consider if it is native or pro res, it also loads and runs very quickly on my 8-core mac pro.
You can transcode to pro res if you like but you are wasting your time as it is far slower than a simple re-wrap in log and transfer.
I used to have AVID that can read the MXF natively but it seemed to take just as long for it to read the files as it does to re-wrap them to .MOV in FCP log and transfer.
it is also a good workflow as I did a drama last year that was edited in Spain, I just sent him a disc with the re-wrapped files on it and it loaded fine in an older FCP studio 2 system as all it saw was the AVC intra 100 as a pro res HQ file.