Well... It's one step forward and two steps back time again. I got the machine mostly disassembled, the Y rail extrusions have been removed, marked, drilled, and bolted back together into a single truss. (Had to run out and get some longer bolts, the bolts I had were too short, or too long.) I also added the grease zerks to the Y axis linear bearings, two straight zerks on the two top bearing blocks, and two 90 degree zerks on the bottom blocks to make greasing them easier.
I had taken one of the X axis rails off and as long as I has the kit of zerks fittings out I figured that I'd add the zerks to those bearing blocks as well. All of the set screws in the Y axis bearing blocks were black oxide, the set screws in the X axis blocks were SS. I didn't pay too much attention to that at the time. Not, until I discovered that the Allen wrench that fit the black oxide screws would not fit the SS screws - too big. That's when I discovered that the black oxide screws were M6 - which I knew, but the SS screws were M5. I ain't got no stinkin' M5 grease zerks, M6, M8, M10, 1/8" BSP, and 1/4" BSP I've got - but no M5's. They are now on order. The X rail that is out has been marked and drilled, tomorrow I'll remove the other rail and get it marked and drilled too. I center punched the mounting hole location that was closest to the edge of the base, when I used a transfer punch to mark the other mounting hole in that rail it was about 10mm off from my layout. I remember that when I added the mounting holes to the base, one of the mounting holes at the RH end of the machine was 10mm off - so I corrected it on the base. I then made the 2D drawing of the base that I used to lay out the mounting hole locations on the base. I think I moved the wrong hole in the model, so that's why the RH mounting hole locations were wrong. Good thing I decided to do a sanity check before drilling the holes in the base.