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Replacing a valve on the water line has nothing t do with burner function. It's just a coincidence that they happened at the same time. When was the last time the burner was tuned up?
Sounds like your burner needs a tune up. The most common cause for what you describe is electrode gap that's out of spec due to wear.
If you're a mechanic or adept in some related field we can take a crack at troubleshooting this. If not your best bet would be to call a burner service company to fix this.
Ok, sounds like you have the necessary skill set to do this. Just come back here when you're onsite and we can pick this up where we left off. Of course a less than truthful owner is always a possibility. A tune up involves replacing the nozzle (you'll need to see what the burner is using now) a new filter at the tank and maybe new electrodes (not always needed). I'll post some things you can try in the mean time.
Here's the burner manual. Go to page 10 for info on how to remove the nozzzle assembly and the proper gap for the electrodes. Be sure to kill the power and shut off the firomatic valve at the burner first.
Also check the cad cell. Make sure it's clean and the socket is in good shape. You should also check/replace the filter at the tank. After you shut off the valve between the tank and the filter and replace the filter you need to bleed the air out of the filter via the bleed screw on top.