I tend not to do hamfisted shotgun repairs on these things, I was going off past experience with DOD pedals always having bad caps in almost every single one I've ever bought. I did check them all with my ESR meter and the first 5 or so I checked were way off spec, so I just replaced them all. I really try to do minimal stuff, this one is just throwing me for a loop for some reason and I've noticed that there are lots of posts around with other odd issues with this particular model. Probably why it had so many revisions, as my board is marked Rev J and it's still the first DOD style logo of the FX series and not the later font change and/or slanted one.
I went for the 4007 which I removed, put a socket and stuck a new one in, no change so I put the original back. The NE570 was bad and distorting horribly so I left it swapped with the new Coolaudio 571, also socketed. I pulled each transistor I suspected and tested them, none were bad so I put them back. I did temporarily swap Q8 with a new 2n5088 with no change so I reinstalled the original. I pulled and socketed the 1458 too as it was reading a little weird on one of the pins, and the new one is not. I suspect the unit was connected to a wrong power supply, or one with too high voltage which would explain a lot of the issues I found so far. I swapped the FET with the odd internal part number for the standard J113 which is in all schematics I can find, still no change.
All voltages seem to read what they should in each mode, and as I mentioned before I have full echo signal entering the unit at RIN and DG.
This has all resulted in the switching working seemingly correctly without the LED slowly fading back on in bypass mode, the echo clock no longer drifts and acts weird, and everything other wise sounds good and works properly except this muting problem which I figured would have been the .47 uf caps like the issues in the 570 flangers your advice helped me fix. But that seems not the case here.
I'll lift C35 and see if it remains muted, I'm not entirely sure what would cause that however, I've checked all those parts too. I suppose C21 could be shorting somehow?