I can't tell you "for sure" that this happened to your furnace control board, but it's happened to me a number of times over the years...
We will go dry camping, it will get chilly, we'll turn up the thermostat, the battery (ies) will be fairly well charged, the furnace will run well the first night. Forget to charge the batteries, the second night, it will get chilly and again, I'll turn up the thermostat. By morning, the batteries are discharged, the furnace won't light, the "check refrigerator" light is on and the DW is not happy....
Fast forward to later in the day: Recharge the batteries, the refrigerator is working, the batteries are charged and "all is well" Darkness sets in and I turn up the thermostat. The furnace fan will run, the furnace ignitor won't "click the standard 3 times", but the fan turns off, then a few minutes later, fan is on again with no ignition. Come a chilly morning, I go looking and find the ignitor is carboned up. Clean it, but it still won't spark.
Change the control board and all is "good again"
Now, my theory: There is a component or a circuit on the control board that is sensitive to low voltage and when that component is called to function with a consistently low battery, it "self destructs" and leaves the board in "failure mode"......
Over the years, I've had probably 5 control boards on Suburban furnaces "self destruct" on me. Every time it's been after a night of trying to run the furnace with a discharged battery. You may well be a "victim" of the same situation...
A word of caution: I no longer will operate the furnace unless I know that the battery is fully charged and will "last through the night" So far, since I've started doing that, I've never had a control board failure.....
Try it, it may well save you a couple hundred bucks "next time"