Rubber Soul and Revolver are the two album that changed the course of rock music forever with melodies, lyrics, and song structure. We all got understanding on how it was going to work from her on out.
Also, the Beach Boys harmonies sounded like something from the 5o’s The Beatles harmonies sounded present day. Here folks is where the main difference lies.
Also remember that the Beatles played their own instruments in the studio, the Beach Boys were loaded with studio musicians in that era.
Makes a big difference when you can play your own material