I was just tweaking up a monitor last night with the indivision tool. Make sure you have it set to "user settings". Making changes to the clock and freq has no effect when it is set to system settings.
What I do to set my monitor up:
First start up workbench and set your screen mode to a non-PAL mode. This way you can adjust settings in the config tool without having your monitor go crazy each time you make a change.
Next load up Indivision Config Tool and open screen mode preferences simultaneously.
Next make changes to PAL in Indivision Config Tool and click "USE" when you are ready to test the mode.
Test the screen mode using Screen Mode preference. Select the PAL mode and hit "TEST". If the mode doesn't work you will get an out of range (or screen won't sync). Simply pressing or waiting 10 seconds will get it to revert back to the original mode.
Once you find the right settings you can use the indivision config tool to SAVE them to ROM.
Try to keep track of your changes on paper. It's easy to confuse the H.freq and V.freq parameters.
Good luck!
