At the same time, Walks of Italy, The Roman Guy, and Through Eternity have not changed their text stating that the passageway is closed, and I can't find a tour anywhere else which touts entry to the church this way. The Vatican itself doesn't have one that I can find.
So, until tour companies revise that text or are selling a specific museums + basilica tour which clearly states that this is the route they'll be following, I'd contact them before booking if this benefit is really important to you.
Example from Through Eternity's "Private Experience: Sistine Chapel, Vatican Museums & St. Peter's Basilica":
Important: since the passageway between the Sistine Chapel and St. Peter's Basilica is still closed due to COVID, we will enter the Basilica via St. Peter's Square after our visit to the museums so the Basilica remains part of the itinerary. This means we must pass security again and the tour length could be extended by 45 minutes on average.