Hello!
If the plant is well established in semi-hydroponic culture, I don`t see why you couldn`t repot it !
I often repot my phal even if they are growing spike or blooming without any problem.
When you say the root is dark and shrunken ( and use to be an healthy root )
Does the root was healthy in semi-hydroponic or BEFORE you put it in SH ?
If it was before you switch to SH, this is normal since all root not formed to SH will die to make place to root adapted to that new condition.
Claude
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