Thanks for the compliments.

The situation you describe is a deliberate game enhancement by myself. I got sick of having to re-establish embassies all the time with AI's, especially when they were on the other side of the world. So I wrote into Diplomod/Apolyton MODS the auto-ability of re-establishing embassies.

You won't see the diplomat doing this in any unit tabs as it is only alive for one turn. It gets disbanded after creating the embassy.
and establish embassies with the faction I just made peace with. The diplomat was not listed in the Unit Manager tab.
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