Yes, I see that too often. Perhaps a Jihad mechanic where units show up for Arabia to represent armies from elsewhere arriving? Or spawn more Seljuks in 1134-onwards to represent the Zengids along with a respawned Arabia in Egypt?
What about my suggestions giving Cordoba a tech boost (and England getting a smaller boost) as well as spawing an indy city in Scotland/Ireland? It would help the wonders to be built more historically and make the celts actually formidable. The thing is that Edinburgh is too easy to capture, at this point.
Is it possible to prevent some AIs from persecuting every foreign religion? Poland, Hungary, (mabye Cordoba, Ottomans, Lithuania, and Germany) should be less likely to persecute foriegn religions. They all had a mix of various religions in them. (as for Germany, a mix of Catholics and Protestants, don't get any ideas here) Likely why Temple Mount takes so long to build. Also you can persecute foriegn religions while in Free Religion civic.

Perhaps because I was in Religious Law/Divine Monarchy as well? I forgot to change those civics. Forgot because my stability was at +20 regardless.
It would be great if, before you start finishing the next version, that you post a list of planned changes.