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Nah, the problem is merely not having enough anti-seized paste in it, and the two material (steel and alu) does not always play well together if left unattend for a prolonged period.
New stem is steel, so should play well with the steerer, I already have the modern Elephant with threadless, disc, and 11 speed, I prefer it with threaded as it fit the whole bike well.
Good call on Busyman, bit overkill when the leather is lovely on the SMP already, but does help make it a little less ugly;
Gonna have to experiment with the Forma shape first before deciding, the Composit now felt closer to find a perfect saddle (no more numbness or getting pressure on soft tissue/sit bones).
If you're doing all that, it's definitely time to get the forks converted to threadless and run a nice custom stem.
You could always re-cover the saddle: http://busymanbicycles.blogspot.com/2011/04/honey-walnut-smp.html