NetLogo Experiment Setup

If I understand your question correctly, then you want 6 values reported at specific ticks during the run. Those ticks are chosen by meeting a condition rather than a certain number of ticks. NetLogo has an experiment management tool called BehaviorSpace. It is straightforward to set up your several hundred runs (potentially with different values for any inputs on sliders etc). It's not so straightforward to only output on certain ticks.

The BehaviorSpace dialogue box has a checkmark for every tick or at the end only. If you have it set to every tick, then you can export your six numbers every tick automatically. In your case, it is likely to be easier to do that than to try and only output occasionally. You could add a seventh reporter that is true/false for whether the matrix is being reset this tick. Then all you have to do in post-processing is select the lines where that seventh reporter is true.

If you want to run the model for exactly N snapshots, then you would also need to set up a global variable that is incremented each snapshot point. Your BehaviorSpace settings would then use that counter for the stop condition.

I'm not sure I understand your question, but usually you will have a Setup function and a Run function, correct? So I'm guessing the code structure below should be kind of what you are looking for. I haven't used netlogo in a while so the exact matrix code you'll have to figure out yourself.

globals your-1by6-matrix your-100by6-matrix

to setup
  ;reset your experiment
end

to run
  ;run your experiment
end

to run100times
  repeat 100[
    setup
    run
    ;save your 1by6matrix into your 100by6matrix
  ]
  ;use your 100by6matrix to plot or export
end