Ohhh! This is a different issue all together. You don't have a Waveform Graph, you have XY graph. A Waveform graph has every sample be the same distance apart, where XY it is arbitrary. Attached is an updated version where we write three channels, one for the X one for Array 1 and one for Array 2. Then when we read we read all values from all three channels, then build them back into a bundle of X and Y values. I also built that into an array so one XY Graph can show both plots but you may want that on separate plots.
TDMS Waveform Example 2.vi