I too had a 1135 EF, stock cams, with rs36 separate k&n filters with a aftermarket exhaust system and micron Gp damper and limited damping .
From what I remember...
Is that the recommendations by mikinu regarding jetsize en settings should give you a good driveable bike. Not perfect but very close.
I too bench synced them using the "drill slide" method and they where spot on.
I would suggest to set them up as per guide and enjoy.