The DRZ tuners start going for the FCR-41 at 470cc and up, for the top-end, mostly in supermoto use - at that point the bike reaches 60rwhp - but is spinning quite a bit faster than the 650 so not sure how it translates. Afaik the 39 is fine in that context except for not reaching full potential at high rpm.
(I am NOT an expert btw, just try to read a lot.)
A quick search didn't reveal the FCR bore the later 650s use. I would 't be surprised if it were 41mm.