Yeah mate, I have to agree with John, a 3 stone hone is good for breaking the glaze on a cylinder, but it'd take you around 100 years to hone each cylinder out to give you the clearances you want. On top of that, if you did succeed to remove sufficient metal, you could possibly taper the bores. Take it to the shop and get them to run their machine hone through each cylinder to open them a tad.
When you had your cases blasted did you remove the oilway caps from the cases? There's one above the points cover and two in the lower case, and you should remove them to flush all the glass beads out of your oilways, if you haven't done so already. I usually use the cheapest super market engine oil to "break in" a newly built engine and change it (and the filter) after 100 miles, just to bed everything in.
I've never used assembly lube, but I guess it's worthwhile. (I don't really, but I'm sure someone will tell me I'm wrong, I've only built a dozen or so CB750 engines over the years, so I'm no expert) Cheers, Terry.