Hi Rob, good to see that it is coming along OK, don't be too worried about the alignment of the reel and bedknife, you can always get your tech, who is doing the sharpening for you, to show you how it's done as he probably sets them up for people that don't possess the expertise. I know my engineer does...we have no info on the forum on Alroh, and I wouldn't have a clue on the alignment procedure other than a generic method, which grumpy has explained very well above.
When my reel comes back it is usually fairly dirty from the grinding procedure. I give it a good wash down with degreaser and dry off, before refitting.

It's a bit late now, but if you were going to paint it, it's a good idea to do it before grinding, otherwise you're going to have to mask the blade edges first, prior to the paint.
Prior to powder coating, you have to have the reel sandblasted and then straight to the powdercoater, otherwise rust will start within minutes, just with the moisture in the air.