I had the same concerns regarding my Tormach 770. I tightened my x axis gib and cut the deviation to less than half. My conclusion was that most of the deviation was caused by gravity pulling the overhanging table down and lifting the opposite side and, to a certain extent also flexing the table. Unfortunately, the ways on a CNC have to be loose enough to permit free movement so I have to be careful to not over tighten the gib. I suspect that the gib may have some problems as well. I'm not convinced that the gib was properly scraped to begin with. I had talked with Tormach about getting a replacement so that I won't sacrifice the current one in an attempt to make it better.
To differentiate between flexing and/or lifting and a non flat surface, I would suggest that the table be centered over the saddle to balance any effects of gravity and to lessen any flexing. Then blue a straight edge and transfer to the table. Any dips or high spots should easily show up. I've got Dykem HiSpot on its way.
Another way would be to place a surface plate on the table, using a three point suspension. Adjust the plate so that it is parallel to the table by using shims at the suspension points. Then sweep the table as you did previously. Although the table may flex, the surface plate will remain flat.There will be some effect from the additional weight but any non-linearity over the sweep would indicate a lifting and/or flexing of the table.
The graph of my table sweep is below. The vertical axis is the table elevation relative to the elevation at the home position. The horizontal axis is the position on the x axis relative to the home position. Each of the graphed lines represents different positions on the y axis relative to the home position. The dashed lines are measurements before x axis gib adjustment and the solid lines are after gib adjustment. The y axis gib was not adjusted.
Adjustment of dovetail ways on a CNC is critical. Over-tightening will increase the drive force required and increase lost motion due to flexing of the various drive components. Under-tightening will cause lash in the perpendicular axis as well as the possibility of lifting. .001" of play in the gib can cause .003" of vertical movement for a 60º dovetail. Tormach recommends backing off the gib adjustment and adjusting a small amount at a time while measuring backlash/lost motion. The correct adjustment is just before the point where measured lost motion starts to increase. I measure the amount of torque required to rotate the lead screw. I devised a micro torque-ometer using a shaft, a pulley, and a sensitive scale.
http://www.hobby-machinist.com/threads/measuring-ball-and-lead-screw-torque.37492/with it, I can plot out the measured torque vs. the gib adjustment. It is essentially the same as plotting the lost motion but, IMO, a more sensitive indicator.
I would caution against making any non-reversible changes to your mill without serious consideration of the consequences. It is easy to change one condition to correct a problem caused by another condition and totally screw up the system (that is the reason that I haven't pushed further with my alignment; I haven't as yet completely identified the sources of my problems).
Welcome to the forum and good luck with your endeavor. If you have any additional concerns, don't hesitate to ask.