Pedro, will keep quiet around the Inquisition soldiers. He said his peace to them on the island. Their lives are their own. If they give him any trouble, he'll use what he has in his medical bag to drug them into the middle of next week to keep them from causing trouble.
Once on land, he'll want to just turn the soldiers loose nowhere near where the Condessa is. Like say in a small port town where they can find their own way but not have a clue to where we are going.
Then , he will want to go immediately to the Condessa to describe the events and the situation. He feels she should know the Inquisition has an all too keen interest in amulet and may have designs on what she is after.
After that, he'll want to turn over the amulet and the inquisition letter to the Condessa. Pedro has zero plans about hiding any of that from the Condessa.