I think the scene would have a lot more power and carry a lot more weight if we allow it to stand on its own, rather than distracting the audience with, “Hey! Yoda’s Theme!”
I get where you’re coming from to a certain extent, but 2 changes in this project include music from the prequels (3PO and R2 theme, ROTS Palpatine as he drains dyad). It would be a shame IMO to not include such an iconic piece from the originals. Even if you remove the music, the scene is still an overt reference to Yoda. You can’t undo that. For me, I really enjoy the music there. It shows how far Luke Skywalker has come; he has taken the place of Yoda.