On current digital printings and STARZ and HBO airings/streaming platforms, there have been many alterations to the film:
The 1997 Universal Pictures logo is now zoomed in.
Both title cards are now shown right before the comets zoom into the light during the opening scene
The fiery comet which Littlefoot sees at night is now yellow instead of blue (although it remains blue during the song "Beyond the Mysterious Beyond").
The fiery pit which blows Littlefoot and his friends out of Threehorn Peak and the small boulder they stand on are entirely reanimated
The pillar of light at the very end is more shiny.
The late-1990's Universal Television logo is added right before the Universal Cartoon Studios logo (which is mysteriously sourced from The Land Before Time V: The Mysterious Island (1997), judging from the last second of the end credits music being heard between both logos).