In ARCHICAD there is no such tolerance setting as such.
You have cursor shapes that give you an indication about the proximity or element Nodes and Edges. You also have Cursor Snap Range setting in Work Environment Dialog>Input Constraints and Guides page that lets you define how many pixels close the Cursor must be to a Node or Edge to sense it. The maximum possible value is 9 pixels.
So you should always make sure you click only when the Checkmark Cursor shape is present.
You can also zoom in in such cases to make sure you find the exact Node you want.
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