If you have a working database backup, then I'd do a restore. If not, the best I can advocate would be to start back with a fresh install of the PEQ database and work from there. To do this without losing your player data:
Download the latest PEQ database release from CVS.
Unzip it. Put drop_system.sql and peqdb_1119a.sql on your desktop.
Go to your Start Menu, Run, then type "cmd" and press enter. Then change directory from there to your desktop: "cd desktop", press enter.
Start MySQL ("mysql -u root -p", hit enter, enter your password, hit enter, "\u peq", hit enter).
"source drop_system.sql", hit enter.
Once that's finished, "source peqdb_1119a.sql", hit enter.
Once that's finished, you should be good to go. See if your server starts from there. If it does, make a backup immediately. If you're unsure how to do this, post back.
One thing I recommend is that instead of splitting too far off from a normal database, that you make sure you can re-do all of your changes every time. If you can't do it by running a few .sql files, then it's going to be very difficult for you to stay updated with future database releases.
I recommend that you start from a fresh PEQ database, and go from there. Things like your server rules and variables won't change, as those tables stay the same. However, if you're careful and make sure you do everything with a query, you can save that query and run it next time. Here's an example of some of the things I run after every time that I update to PEQ's latest push:
Code:
### This allows the rogue epic to be equipped in the range slot ###
UPDATE items SET slots = 26624 WHERE name = 'Ragebringer';
### This gives the Robe of Living Fungus regen like in the old days ###
UPDATE items SET regen = 15 WHERE name = 'Robe of Living Fungus';
### Change Circlet of Shadows to Circlet of Shadow ###
UPDATE lootdrop_entries SET item_id = 14730 WHERE item_id = 29400 and lootdrop_id = 3628;
UPDATE lootdrop_entries SET item_id = 14730 WHERE item_id = 29400 and lootdrop_id = 23287;
### Change Fungi Covered Great Staff to Fungus Covered Great Staff ###
UPDATE lootdrop_entries SET item_id = 10895 WHERE item_id = 11058 and lootdrop_id = 410;
### This sets the Evil Eye in Guk to drop the Bag of Sewn Evil Eye 75% and Manastone 25% ###
UPDATE lootdrop_entries SET chance = 75 WHERE lootdrop_id = 18855 and item_id = 17354;
INSERT INTO lootdrop_entries VALUES (18855,13401,1,0,25);
### This removes the NO DROP tag from all items ###
UPDATE items SET nodrop = 1 WHERE nodrop = 0;
### This makes the Ghoul Assassin drop the Guise of the Deceiver rather than the Mask of Deception ###
UPDATE lootdrop_entries SET item_id = 2469 WHERE item_id = 2472;
By doing things that way and with regular backups, you'll make sure that you always have something to go back to. It's a lot more tedious than using GUI interfaces and tools, but you wind up being able to keep current because of it.
Of course, I'm kind of biased towards doing it that way, since it's how I do it =P