"While flying over a small part of New Mexico...."

They are both satellite signals though and it makes sense that some types of satellite jamming could impact commercial methods.

A little digging revealed the Alaska Airlines in-flight internet uses the SES-15 satellite operating in the Ku band, whereas GPS operates in the L band. Further, you jam satcom by jamming the uplink receiver on the satellite, and you jam GPS by trying to overpower the receiver on the ground (or in the air) [generally speaking; I'm sure there are other techniques].

I'm inclined to believe @sarangan's theory. This link from the VLA supports the notion that Ku band satellite interference is a problem for the VLA. https://science.nrao.edu/facilities/vla/observing/RFI/Ku-Band. I suspect
that the SES-15 spot beams are voluntarily being nulled around the VLA.
 
Just seemed like an oddly specific limitation. I knew someone here would have the answer.
 
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