I am not sure if I understood your question correctly. Do you have the 2D images of your porous material and you want a software for visualizing the 3D data?
In any case, you can obtain 2D radiograph of the material by X-ray tomography and reconstruct your 3D volume by different software:
1.- Acquisition tomography software normally offer a reconstruction option as well;
2.- Avira software is a powerful tool for reconstructing the 3D volume and carry out statistical analysis. However, is not for free;
3.-ImageJ is a free software which allows you to treat 2D images and also to superpose them for doing 3D visualizations;
4.-Python, which is also for free, offers some image packages that allows you obtaining 3D volume reconstruction from 2D images.
Unfurtonetely making 3D images from 2D SEM observations is not straightforward. You would have to take SEM images of different layers (several hundreds) of the materals with "constant" thickness. This oblige you to machine your sample everytime you will perform SEM. Then, the issue is that you will probably damage your sample in the process and the morphology will not be longer the same.
As I mentioned, the best way to get 3D images is by tomography.
the images that you have put are taken HYMOSTRUCT, which represent the hydration of cement. I can defenetly help you on the question you have raised, there are testing facilities in India like IIT bombay who can do the testing for you at a sample cost of 3000 to 4000 rs. The sample size required ranges from 1mm3 to 30 mm3. If you are interested we can take it further, with some conditions.