You have maintained that a flux tube is a magnetic tube. And it does not come from the plasma flowing through it.
So can you have a flux tube without the plasma? Does a flux tube need the plasma to form?
And you have said that reconnection can happen in permanent magnets.
So show me an example of reconnection happening in space with no plasma.
A magnetic flux tube, in principle, is just a bundle of field lines, for which the magnetic flux through the start and end surface is the same, period, end, no further, that's it, final, nothing more to write down.
Now, naturally, we have to chose a surface, for example the cross section of Io, which then creates the Io flux tube. Note, that here the situation is different as in this definition the magnetic field lines are moving along the surface, entering and exiting, but in the end, as it is quasi-stationary, the flux "through Io" remains relatively constant.
Now, take a foot point on the sun for a coronal loop or a prominence. There the field is rather well anchored in the photosphere and not such motion is happening with the field lines, but they can move as a collective, which they do. They shear the field, generating a EMF.
In all, we still don't need any plasma whatsoever, as magnetic fields can quite easily exist in vacuum or in neutral gas. Indeed, before I switched on the plasma in the double plasma machine, the magnetic field generated by the coils around the tube was quite well in existence, as I usually noted when I forgot to take off my watch trying to adjust stuff. Measurements showed that the field was rather constant in the region where the plasma tube would be located (see my paper about this double layer experiment, some pages back). I can define a flux tube that has the size of either the glass tube or of the cathode in the tube (more useful).
Reconnection does not happen
in permanent magnets, but in the region between the magnets. That this needs to happen is quite easily seen, when you draw a set of field lines for two magnets side by side and then move them apart. Then you find that in between the field will be less strong (with the stronger field closer to the magnet on either side of the middle line) and thus field lines had to be reconnected. How this exactly works, I don't know, that is still a question to be solved, for example by the upcoming space mission MMS, but there will be plasma involved there which makes it more complicated. In the case of no plasma it is most likely already solved as just moving magnetic fields in vacuum, take a vector potential description of it all etc. This is probably even in Jackson, but I am at home, so I cannot check that. (However, as nothing really happens in that case, it is not very interesting.)
Now as soon as plasma is present, then there can be extra currents, e.g. driven by the EMF of the shearing footpoint motions of the flux tube, and these currents create a flux rope structure.
It is possible very unlikely that examples of reconnection in space with no plasma present can be given, as there is plasma plasma everywhere.