As you've already decided against using the existing \$R\$ to sense current, as proposed by @Transistor, here are my thoughts about your own design.
Could this higher voltage level, which the current source must generate, be a problem?
The source of that 4-20mA current will have some limit to the maximum voltage it can apply across the sense resistance of the receiver, a maximum "compliance voltage". If for example that source is using an internal 12V DC supply, then that maximum could be near +12V.
Whatever sense resistance is employed, it must never develop a voltage exceeding that, so assuming a maximum of 12V, the largest permissible resistance would be calculated according to Ohm's law:
$$ R = \frac{V}{I} = \frac{12V}{20mA} = 600\Omega $$
In practice you would aim to develop significantly under this maximum compliance voltage, to avoid hitting that cap by accident, should the signal source's supply be only 11.5V, for example.
In your case, you have two current sense resistances in series, \$R\$ and \$R_S\$, for a combined value of \$R+R_S\$. This combined resistance must not develop a voltage exceeding that maximum. Staying with a 12V maximum, this would mean:
$$ R + R_S < 600\Omega $$
Therefore, the first thing to do is determine the maximum compliance voltage of the 4-20mA source, which you could do by removing all loads, and replacing them with a large resistance like 10kΩ, while the source is trying producing 20mA. Or you could read the manual. The voltage across that resistance will be the maximum \$V_{MAX}\$ that the source can produce.
Now you have some idea of the largest permissible value for \$R_S\$:
$$
\begin{aligned}
R_S + R < \frac{V_{MAX}}{20mA} \\ \\
R_S < \frac{V_{MAX}}{20mA} - R \\ \\
\end{aligned}
$$
If you find that \$R_S\$ is prohibitively small, requiring excessive gain \$\frac{R_f}{R_e}\$ from your differential amplifier, then you'll need to find another solution.
Could there be some interference by adding an extra resistor to the system?
If you haven't hit the compliance voltage limit, then there's no "interference" by \$R_S\$. However, you still must consider the your differential amplifier's influence. It might to be the biggest "invasive" element here, because it will divert current away from \$R\$, by an amount related to \$R_e\$. If you could guarantee that current entering one of its inputs was equal to current returning via the other, then this wouldn't be a problem, but sadly that's not going to be the case. You'd have to make \$R_e\$ (and consequently \$R_f\$) extremely large in comparison to \$R\$ to minimise the error introduced by your amplifier, which comes with its own issues.
Is there any method to measure the current without being too invasive to the system?
While not addressing methods here, I will propose that you consider using an instrumentation amplifier (IA), like the INA128, to reduce input currents to near zero, removing the influence I just described. IAs tend to have great precision even at high gain, so you'll probably find you can employ a very small \$R_S\$ without worry.
The precision of your own differential amplifier depends very much on good matching of peripheral resistors \$R_e\$ and \$R_f\$. An IA will not require any such matching.