Well, I am at work and only had a couple minutes to look over the schem for the Klone etc. I know it is not true bypass, but the fact that you are not getting your LED lighting up seems to indicate a power issue. As far as I can tell from a quick look at the layout, the LED should light if you are getting power to the board, and if your switch is working.
How is your DC jack wired up (cant tell from the photo's). It looks like you are not using a battery, so you should have your ground to the ground on the DC jack, and the pos to the outside of the two pos terminals on the DC Jack.
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Check your DC jack wiring, and then set your multimeter to read Voltage (usually you will pick 20V, whatever voltage step is the one that is larger than 9V, put the black probe on the ground, red on that outside positive lug and make sure you are getting power through the jack.
Switch to measuring resistance and check for continuity to make sure your ground and power connections to the board are good, double check all the continuity through the foot switch, then switch back to voltage and follow the power trace to the LED. On that note, is your LED the right way around??
There are lots and lots of good posts etc here on how to do this type of continuity and voltage checking (use the search, or look in the Effects Pedals Technical Support, or DIY discussion forums). Have a look around, read up on the troubleshooting stickies etc, get some results from your testing and let us know what you find.
Be careful not to order the dysfunction tube. Those tend to whine a lot and blow up.