Pretty hard to cut the strip wrong. When you place the saw on the rail, plunge it down, the blade can only go where the saw will allow it, straight down. On the first cut with the saw on the rail, your strip will be cut, and the strip and the blade will then be directly beside each other (zero clearance). In this case, the edge of the strip can then be placed on the marks for future cuts because you know the left side of the blade will be touching the right side (outside) of the strip as it cuts. Sorry if it comes across that I am talking down to you, this is not my intention, just want to break things down in simple terms.
Maybe a couple of other things could be the culprit.
Have you changed blades at all. I am pretty sure that most of the festool blades have the same kerf (1.8 or 2.2mm I believe, someone will chime in and shed light on this I am sure). But maybe this could account for the outage some how???
Did you set the saw up to the track before making your first cut? There are two green knobs on the base of the saw. These adjust the base to the track so there is no slop at all, sideways movement. If you have not done this, it could certainly be the reason you are 2mm out each cut. Maybe the way you cut always pushes the saw against the rail in one way that you get consistent cuts that are out 2mm. Adjust these knob size to guide the saw down the rail with precision.
I recently have noticed my 3000mm rail is out when ripping sheet goods maybe 1/2mm on one end. I have not broken down too many sheets but for some reason my strip,is out. No way when I place the strip up against the marks I am continually out by 1/2mm on one end. I'm in the midst of adjusting my strip over. Is it possible that your strip is out (2mm would be a lot mind you, it would likely look like you have no strip poking out past the edge of the guide rail). I know you are not at home, but when you get the chance, put the saw on the rail, plunge the saw down, and then look to see if there is a gap,between the strip and the saw blade at various points along the entire rail, especially the first 1-2 feet of the rail or where you would commonly place the rail to line up the marks on the ends of you material. Of course do this while the saw is not plugged in.
Hope this helps and you get things figured out. These saws really are great, and the cuts they make can be incredible in accuracy and smoothness. Just be patient.