Oh you are right. 0.1 Ohm should still be safe, but when I move to higher current I will need lower resistance where track resistance could be a problem. There are some high power MOSFETs that have a package design for cable wiring, so the power part of the circuit can all be wired.If you are using a very low value shunt resistor, you would be best advised to handle it as a four-terminal device (at least in terms of track layout, whether or not the resistor has separate current and potential connections). You would therefore need to use either two A/D inputs to your device, or else use a differential buffer amplifier.
If you try to use a simple resistor of just tens of milliohms, with significant wiring or track resistances in series, you may find the voltage is noticeably in error, and this error will move around with temperature because the temperature coefficient of resistance of copper is relatively big.