How exactly increased elo makes lichess worse? I would only argue that because of the number of players chess.com it seems more stable. I really feel every 50 of elo difference.
Chess.com also uses Glicko. Though it might be version 2 on lichess and version 1 on chess.com.
You're right about the versions, they also have wildly different starting values and very different player pools (I'd argue that more beginners play on chess.com), so you'd expect a substantial elo difference between websites