Aaah yes, I do have Procedural Parts installed, could well be the source of the 3 errors on startup. With regard to reaction wheels, It sounds like a good idea to lower RW torque by 50% so it stays inline with the mass reduction.
Also it's worth noting again as someone else mentioned earlier... the CKAN release does not have the "extra's" folder in it with said patches, just a heads-up.