Recalling that there’s less air per cu cm the higher we go, the bolide would still be traveling very fast. Combine that with the forward momentum of the plane and you could get a pretty good smack out of a modest sized rock. Remember, the dental office down the street didn’t vaporize when hit ~ in fact, visitors were out in the parking lot looking for pieces. Still a hole in the roof. Now, put that hole in an airplane in an area with fuel you might have some exciting times ~ for a couple of seconds.
Six weeks before the TWA-800 Disaster, a fully set-up, live, tripod mounted SAM was discovered abandoned on a Long Island road near the flight path where TWA-800 went down. This was an expensive piece of ordnance that may have been abandoned because the people intending to use it were interrupted and fled before they could. What are the odds? What were they intending to shoot down?
I believe that it is a possibility. But there is other evidence that counters the meteorite theory.