New Server Issues

[SoltanHeatwave]

I just built my EQEmu server and am experiencing some perplexing issues. I am a complete newb at running this server. I am just glad that I got it up and can login to it.
I followed the guide located here and was able to get the server up and running and was able to login to my server. When I used CMake there were no reported errors and when compiled with VB 2012 express I didn't get any errors. I have found and attempted fixes that I found on the forums, but nothing yet seems to work. The problems I am experiencing are:
1. When I click anywhere on the client, while zoning I crash to desktop. As long as I don't click anywhere inside the client interface while zoning the zone will load.
2. I downloaded and used the peqbeta_2013-11-22-02_01.sql database. Primarily because I couldn't locate and download any other. The database, user files and bot sql files loaded without any errors. When I attempted to import the required sql files located in the source\utils\sql\git\required folder I get tables not found errors. So I redid my database without importing these files.
3. The gates of discord will not load. I keep getting that "the plane of discord is closed to me" from the priest in PoK, but when I guilded myself and went into the guild hall I got the walls of slaughter item for the transporter, and when I stepped into the transporter nothing happened. My client is a SoF retail version that I purchased years ago. That version does have the Gates expansion on it.
4. When in the guild hall, I cannot exit back into the GL, because the exit door is missing. The door is replaced by a sky graphic that cannot be clicked.
5. When I click on the freeport stone I get an option to zone into the old style Freeport, which I really like, but when I do the graphics are wrong, all the npc humans and mobs look like regular unarmored humans. The mobs aggro correctly in this zone. When I zone into the new Freeport the graphics are correct, but none of the mobs aggro at all. This is reversed in the new Ak-Anon zone. In the new zone the graphics are good, in the old zone they are wrong. In both instances how ever the new zones mobs will not aggro at all. I have tried reloading maps, even deleting the map folders and redoing them from scratch. In the new Ak-Anon zone the PoK pedestal is missing.
6. I do not get any kind of aggro from any mob at all in any expansion after the Omens of War expansion. This includes the new Commonlands and Steamfont zones. I can't check Omens since I cannot get to the zones.
7. I cannot get bots at all. When I compiled the server with CMake, I ensured that I checked the Bots box. I even redid the make and recompiled it in VB 12. I ensured that the Load_bots sql script was loaded. I don't get any response from the Bot merchants.
8. Quests don't work. When I hail a quest agent I get no response from them at all. I was able, after spending some time in the game zoning around and checking out mobs, I went back to PoK and started to get the "A mysterious stranger" tells from the wayfairers, so I went to the quest NPC standing next to the PoK binder and was able to get a quest. I zoned to a number of other zones and even though I was getting the wayfairers recruitment tells I wasn't able to get any of the quest NPC's to respond. In fact I am not getting a response from most NPC's when I hail the.
8. I attempted to use admin tool 5.9, but keep getting can not load database. I have checked the ini file and have tried different configurations for the locations of the path values, and ensured that the user name and password were correct.
9. The portal to Jagged Pine Forest is missing in the Glade.

Steps I have taken: I have totally deleted all folders and started from scratch, I have redownloaded the maps, deleted the maps directory and reloaded again. I have tried numerous solutions posted on the forums. So far nothing has worked.
I don't know anything at all about the sql database, but when I loaded it, I didn't get any errors.

Thank you in advance for any help you can give to me.