I know what you mean about the high D/F setups being good on the road courses - I noticed that when I knocked a second off my Sebring Short time with the R2 Ferrari when I bumped up the downforce.
That said, the Peugeot is almost certainly faster on the Motegi oval with a low downforce set-up. For some reason it just seemed to work really well there, even on that last corner I was only down to 5th gear and even then the revs were well up on a good lap. In fact, I was spending over half a lap running in excess of the top speed achieveable (182mph) with the high downforce set-up.
As for New York, I did try the high downforce setup, but although there was a small increase in speed around the corners, the low speeds there resulted in only a slight increase in cornering speed due to the lack of airflow over the spoilers. That ended up being more than cancelled out by the higher speeds on the straight. The only other tracks where the low downforce setup seemed to work were the Speedway as you mentioned and Sunset Infield Short. On Sunset Long, there was very little difference in times, with the high downforce setup being slightly (i.e. about 0.05seconds) faster and also being much more consistent.
Incidentally, the next random car is another R1 - the #2 R8 so I'll be interested to see how I compare to your times.
EDIT:
Got this one finished off tonight, and was very surprised to see that the total time for all tracks had dipped below an hour. Obviosuly this car is not as bad as I thought it was, although I still feel there is no doubt that it isn't up to F333 or R10 standards. Judging by my run at Road Atlanta chasing my R8 ghost, i would say the cornering ability is up with the R8 but it just lacks on the straights which is in line with what I've said before. So, without further ado, the times:
PR: 153.514FR: 114.764TR: 116.240QR:
149.246I think the high levels of downforce show here as this is the only car I have so far with a lower Flowing Rank than Twisty Rank. I wonder if the same will be true with the R8...

And, overall, the time was:
59 minutes 43.282 secondswhich puts me squarely between Larry and Blooze in R1!