Looks good, Robert. As to your point #3 above, the line from the black canister is meant to purge the fumes from the gas tank into the intake when the engine is running, as opposed to venting them to open air. Shouldn't be too big of a deal. Also no biggie with the big hose from the secondary air system coming off the exhaust.

Did the filter come pre-oiled? If it's not a paper filter, it requires oil to function properly and should be moist. I seem to recall mine was a K&N style that required periodic cleaning and re-oiling, but yours may be paper??

If you wanted to get all fancy, you could rig up fittings on the top of the air filter cover to plumb the open fittings that used to go to the stock air cleaner housing...but I wouldn't bother.

Good job!

John B.