Thanks for yout help, @gnwiii and @mengdahl. My advisor could find this issue here that led us to a solution. Thankfully GPT is working fine, and our graph was actually incorrect.
In the graph XML, the multilook nRgLooks (number of range looks) tag was set to 1 (<nRgLooks>1</nRgLooks>
) by default. In SNAP though, this setting it is automatically set to 4 in this kind of input data. So we changed it accordingly in our XML, and now the output comes as expected.
<node id="Multilook">
<operator>Multilook</operator>
<sources>
<sourceProduct refid="TOPSAR-Deburst"/>
</sources>
<parameters class="com.bc.ceres.binding.dom.XppDomElement">
<sourceBands/>
<nRgLooks>4</nRgLooks>
<nAzLooks>1</nAzLooks>
<outputIntensity>false</outputIntensity>
<grSquarePixel>true</grSquarePixel>
</parameters>
</node>
This discussion can be closed now!