Not a heck of a lot changes.
A lot of protestants wouldn't settle for tolerance, especially as Mary would succeed a protestant king. I think there would still be no shortage of complaining, although Mary won't get the nickname "Bloody".
On the other hand, protestantism isn't nearly well-established enough yet for a Glorious Revolution type scenario. Mary held the throne until her death OTL, and was killed by influenza, not civil war or revolution.
Elizabeth's religious convictions weren't the result of her sister's persecution of protestants, so they'd probably be unchanged. She will still succeed her sister, still be a protestant, and still occasionally have catholics killed for trying to overthrow her.
The one thing I can think of is that the Marian exiles - those protestants who fled to the continent under Mary - don't need to leave. Many of these individuals would play a formative role in Anglicanism, and without a period of exile and the resulting close contact with their counterparts on the continent you might alter the theology of the Anglican church in various ways. Sadly I don't know enough to say what those ways would be.