I also had a very hard time adding the bots. Try looking in your \EQ\SQL\ folder for a file called 'load_bots.sql' it should add the missing stuff to database. Also I had to run the eqemu_update.pl a bunch of times till everything got updated without errors some updates needed several runs for it to get everything in place. It was very complicated to get it running if I remember correct there were also some problems with the load_bots.sql and I had to manually do some stuff. I hope they find a simpler way to get it done in the future.
I did not use that installer it was not out yet. I used the Complete Windows-based Server Setup Guide Have a read through it and see if it gives you any idea of something that can help you with the bot problem.
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