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Imported bone transform is different from original. Please check Output Log to see detail of error

I know this has been asked many times on the forum and simply setting the scene scale to 0.01 in Blender fixes this but it makes my mesh tiny upon import and I’m using the Simple Procedural Walk plugin to procedural animate the legs. If I set it up to work with the tiny skeleton scaled up to what it originally was, the plugin goes haywire.

So is there a way to mitigate this bone transform issue without having to change scaling?