[dtrush]

Fixed the problem. Basically I thought that installing a 6.5 rom might work. I used a MightyRom, tried the EPST and everything worked that time. I'm not sure why the two 6.1 roms I was using were not allowing the settings to be updated. I had updated them a bunch of times before so I was surprised at what was wrong.

Thanks all for your suggestions!
Hopefully someone will benefit if they have the same problem.