The deity files recently received an overhaul, with some of the allowed alignments for clerics changing. If your cleric is now of an un-allowed religion for your faith, you will find that things that used to give you favour now take it away. We are working on confirming these alignment changes and will post with a course of action soon.
The specific indication that this has happened to you are the conflicting messages
Your incompatibility with your patron's belief has displeased them greatly.
You sense that your patron approves of your actions.
when you cast a spell that your patron would normally grant favour for.
