You're dealing with very different steels, requiring a very different sharpening procedure. The nakiri shouldn't be too problematic in deburring, supposing you deburr by light edge leading strokes after every stone in the progression. There should be no need for any stropping after the last stone, say 4k or even higher. Giving its hardness stropping on MDF could be rather risky.
I don't know the Porsche Chroma 301, and information about the steel is strongly contradictory. If it is a common Japanese moly, I would end at 2k and deburring by edge trailing strokes alone should work. If it happens to be German soft stainless, don't go as far.
The main idea of deburring is careful abrading. No violent breaking away, as the edge behind it would terribly suffer. This is only different with fine, hard, simple carbon steel. See Jon's ultimate deburring with an abrasive sponge.
As for stropping in general, it might help to strop one side, and remove the moved debris by abrading with a stone, and do the same the other way around. Stropping both sides for burr removal only works with soft carbon steel. And accept some edge rounding.
I would suggest you to have a look at what the MDF actually does to your edge. Use a loupe. I find the extra bite it delivers rather worrying. Please don't do it with the hard Aogami Super. I guess breakages at a microlevel may occur.