Malware removal problem: footer

[nuTTTz]

We recently had an appspot link turn bad for us, it was previously our qualifying form, but the host wanted it removed.
Now we are getting malware alerts, blocking an outgoing IP.

The big problem is this,, when the links were removed from the database it had some unwanted side effects.
It stopped the malware alerts yes, but.

Our footer had dissapeared, posting options were affected (reply came up as reply with quote) PM messaging is not working correctly, and a couple of other small things.


How can we correctly remove these links so the forum works properly?


Our version is 4.0.7

Thanks in advance