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It could just be a cold solder joint the resistor should be fine just reflow the CLR solder joints apply your iron for about 5 seconds until you see the solder flow on the topside would be easier
FYI you’d get continuity from the 9v pad to the CLR then the other side of the CLR should have continuity to the LED anode, then ground should have continuity to the LED cathode when it’s in effects mode
If you set your meter to 20V DC the V setting with the dotted and straight line (see below) put your black (COM) probe on any ground point and touch your red probe to the LED anode to see if you get a reading you can do the same for the 9v pad and the CLR
This shows where you should get continuity red 9v and yellow ground in effects mode, just ignore the blue line the best way for you to continuity check is to for example put one probe on the 9v pad and the other on the actual CLR leg rather than the solder joint then from the other side of the CLR leg to the LED anode leg that way you’re checking your wire to the LED is also ok then with it in effects mode touch the actual LED cathode leg and any ground pad or the 3PDT lug with the yellow line
Have a look at the beginners guide to components where it explains how a 3PDT works