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Rasit said:
I made the mistake of attacking a marsh with a supply lowering death site,
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Do you mean with a death-scale-increasing site? Which one? Are you sure it was not a disease-causing site?
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to make matters worse I accidentally hit e instead of r, twice!
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Do you mean 'e' instead of 'w'?
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[...]Since everyone got a disease I was forced to get them in a battle every 4 turn, luckily I had a regeneration bless. 
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If you leave your army parked for 8 turns in a disease-causing site, there's a very good chance everyone will get sick. I'm not 100% sure, but I don't think your commanders will get diseased just because of supply problems. Army yes, commanders no.