Every Honda I've ever owned has been .002 in and .003 ex. From 50's to 750's. I have never seen a motor with an intake measurement more than an exhaust measurement. I've seen some the same, and most where intake is less, but NEVER seen one where the intake was more. Think about this logically, the exhaust valve WILL run hotter and expand more, necessitating a little more clearance.
As for adjustment, and I've done this on just about every bike I own and it has worked for 40+ years. I just watch the valves and after the exhaust cycles and the cam lobes are away from the rockers, I check and adjust. Some of you may cringe but you are on the heal of the cam with the rocker and that's where you need to be. I don't worry about lining marks up perfectly etc. Just watch the valves. Works on my Honda's, Yams, Triumphs, Nortons, Guzzis, Ducati, etc. etc. etc.
Basically, don't over think it too much, understand the theory and watch the mechanicals work, it makes sense.
