I checked the files you send and I would suggest to change a few settings. Please note that I don't have Shipflow available right now and that my suggestions are based on my previous experience with Shipflow. I am also not familiar with the very latest version of Shipflow.
General remarks: Please read through the Shipflow tutorial "SHIPFLOW CFD Analysis" which comes with CAESES. There you can study how to create a simple XPAN setup using a SurfaceGroup as geometry input. As Shipflow is an external code it comes with its own tutorials which you should consider to study as well.
For the file cargo_2:
1) The ship geometry has a length of 1800 units (either m or mm). In your offset settings you provide a length of Lpp=45. Both numbers should corelate.
2) Since you have the geometry in CAESES you could follow the CAESES tutorial - create a SurfaceGroup (in addition you could create an ImageSurfaceGroup and apply a scaling to it to scale down your ship) and use the command YourImageSurfaceGroup.exportIGES("YourHullName").
3) Furthermore you don't provide commands such as xaxdir, ysign, xori and zori. I am guessing you should set those values.
For the file container:
1) Consider all the above suggestion for this case as well.
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