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Well, I'm afraid we don't know what that PPA provides, its a personal archive. It might be better to build Geany from a nightly tarball, then you know its exactly the same since its made from the same tarball.
But then when you are sure its exactly the same Geany on both systems then it comes back to what is different between the two systems? The same Geany can't behave in differing ways unless the underlying system is different.
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