Hi Wong, in looking at your column, I can see where you are at, and given what little I know about Sherline machines, I gave a lathe to my sister a few years ago, I think your best bet it to take the block which connects the column to the base, and beg, borrow or steal a way to check it on a surface plate, and ensure it is absolutely as square as you have to tools to make it, as it is the heart of getting the column exactly right. If you don't have access to a known accurate square, you can take one of your own and make it exact by the use of a straight edge on a piece of paper on a good flat table or board, draw a line with the straight edge clamped in place and the beam of the square against the straight edge, and then flipping the square to the other side and drawing a line from the exact same starting point with the sharpest pencil you can achieve, and with magnifying aid, determine if the two lines are indeed one, or if they splay out at the end. This can also be done on a piece of metal with a known straight edge and doing the same thing with a needle as a scribe, for a fine line, and if it is out of square, stoning the beam appropriately until you can discern no deviation in the line.
In flipping the square, you double any error in it, making it easier to see. If I remember right, that block is held to the base very much the same as it holds the vertical column, so you need the inside of your square to be the part you concentrate on in order to gauge the squareness of that block, unless you have a surface plate and can use it to ensure the faces of the block are flat, and if they are, using the outside of the square to determine the block's squareness on the surface plate its self. Ultimately, the accuracy of your work now will determine how you do with everything worked on that machine, and will make you either laugh or cry, yet it is the easiest fix there is as you have full access. If you have access to a true and flat surface, even an adjustable miter gauge such as used to lay out angled lines on stock, can be used as a square, by setting it to the block in hand, and then putting the block on the surface, and comparing the gauge face to face with the block, once again, doubling any error. I hope this helps get you where you need to be.

mad jack