The more interesting scenario is one where Biden wins both NE-1 and NE-2, but still loses statewide by a substantial margin. That would just further exemplify the geography problem Republicans could have in the Great Plains states if suburban trends continue.
I don't see how that's even possible, though. If Biden is winning NE-02 and NE-01 (even with a plurality), then he is surely winning NE-AL, even if it's by a few hundred votes a la JFK in Hawaii in 1960, Bush in FL in 2000, or even Trump in NH in 2016 (~3,000 votes less than Clinton--still razor-thin).
Trump's margin in NE-3 is far greater than Biden's in NE-2, so if Biden ekes out a narrow win in NE-1 then it's likely that the sheer margins in NE-3 would still be enough to carry the state for Trump.
2020 results:
NE-1: Biden 132,000; Trump 180,000
NE-2: Biden 176,000; Trump 154,000
NE-3: Biden 66,000; Trump 222,000
Total: Biden 374,000; Trump 556,000
If you apply a swing of moving 25,000 Trump voters to Biden in each district you get:
NE-1: Biden 157,000; Trump 155,000
NE-2: Biden 201,000; Trump 129,000
NE-3: Biden 91,000; Trump 197,000
Total: Biden 449,000; Trump 481,000
Biden winning NE-1, Trump winning the state.