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Thanks, I guess the same applies for the x axis right?

Yes, you can align x-axis across multiple chart using same logic as mentioned above.

Hi there, this dont work on chart updates. I let you the example
Try to hide and show Series multiple times

You can reset the margin of y-axis to 0 before aligning the y-axis across multiple charts as shown in the code snippet below.

for(var i = 0; i < charts.length; i++) {
   charts[i].axisY[0].set("margin", 0);

Also, please take a look at this updated JSFiddle for complete code.

Manoj Mohan
Team CanvasJS