It seems fine, I'm now getting 14.5V at idle, going up to 14.7V with some revs. And that's with a 25ft wire coil between the R/R and the battery...

In the few minutes I ran it, there was no noticeable increase in temperature on the regulator. The remaining stator wires up to the new connector, though, got hot! Those are only about 16ga (~1.3mm^2) which is way too thin. I'm not sure how much the alternator can supply but it's gotta be at least 20A so each stator coil would then have a current of in the ballpark of 13A. The table I'm looking at says that 18A through 16ga wire will bring the temp to 90C... Would it really have killed Honda to have upped the thickness of those wires a bit?
I assume this isn't unique to my bike. Does everyone else's alternator wires get hot, too?
Edit: Pictures!