Should the Voynich manuscript be called the Mondragone manuscript or another name?

[Mark Knowles]

the Prague manuscript

It occurs to me that Prague is Czech so I wonder why that would be preferable over Polish.

There is a historical connection between Prague, i.e. the first known whereabouts of the manuscript, and the manuscript itself, but no known historical connection between Poland and the manuscript. Personally, I would prefer the name of the first known owner to the first known location.

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"The Bacon manuscript" would have caused all different kinds of confusion.

Yes, that would have been a terrible idea. I suppose a descriptive name such as the "gallows script manuscript" could be possible.